Citrus Sinensis ID: 039362

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440
Protein Sequence
MLSFSALSYLGNIDYSCKVLSHLSNPRIFYWNTVIRGYSKSKNPNKSISLFVKMLRAGVSPDHLTYPFLAKASGRLAKRELAVAVHAQIAKTGYESDLFISNSLIHMYGSCGDIVYAREVFDGMPTKMSVSWNSMLDGYAKCGEMNMARQVFELMPERNVVSWSALIDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQSDVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQMPLEPTASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEARTTREAMETRGVKKYPGWSFVE
Secondary Structure (PSIPRED)
cEEEEcccccccHHHHHHHHcccccccccHHHHHHHHHHcccccHHHHHHHHHHHHcccccccEEHHHHHHHHccccccHHHHHHHHHHHHHcccccHHHHHHHHHHHHHcccHHHHHHHHcccccccHHHHHHHHHHHHHcccHHHHHHHHccccccccccHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHccHHHHHHHHHHHHHHcccccccHHHHHHHHHHccccHHHHHHHHHccccccccEEEHHHHHHHHHccccHHHHHHHHHHHHHcccccccHHHHHHHHHcccccHHHHHHHHHHHHHccccccccccHHHHHHHHcccccHHHHHHHHHcccccccHHHHHHHHHHHHHHccHHHHHHHHHHHHHccccccccHHHHHHHHHcccccHHHHHHHHHHHHccccccccccccc
Secondary Structure Prediction (SSPRO)
cEEEEEEcccccHHHHHHHHHHcccccEEHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccccHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHccccccEHHHHHHHHHHHcccHHHHHHHHHHccccccEHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHccccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccccccccc
Coil and Loop (DISEMBL)
MLSFSALSYLGNIDYSCKVlshlsnprifYWNTVIRGysksknpnkSISLFVKMLRagvspdhltypfLAKASGRLAKRELAVAVHAQIAKTGYESDLFISNSLIHMYGSCGDIVYARevfdgmptkmsvSWNSMLDGYAKCGEMNMARQVFELMPERNVVSWSALIDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKglsltlplqtSLIDMYAKCGAIKEALIVFHGVEKHQSDVLIWNAMIGGLAMHGFVKESLELFTEMqivgitpdeITFLGLLSACAHGGLVMEAWYFFKSlgkrgmvpkseHYACMVDALSRAGQVTEAYEFICqmpleptaSMLGSLLTgcmnhgklDLAEIVGKKLVelqpdhdgryvgLSNVYAIFKRWDEARTTREAMEtrgvkkypgwsfve
Flexible Loop (DISEMBL)
MLSFSALSYLGNIDYSCKVLSHLSNPRIFYWNTVIRGYSKSKNPNKSISLFVKMLRAGVSPDHLTYPFLAKASGRLAKRELAVAVHAQIAKTGYESDLFISNSLIHMYGSCGDIVYAREVFDGMPTKMSVSWNSMLDGYAKCGEMNMARQVFELMPERNVVSWSALIDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQSDVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQMPLEPTASMLGSLLTGCMNHGKLDLAEIVGKKLVElqpdhdgryvGLSNVYAIFkrwdearttreametrgvkkypgwsfve
Low Complexity Region (SEG)
MLSFSALSYLGNIDYSCKVLSHLSNPRIFYWNTVIRGYSKSKNPNKSISLFVKMLRAGVSPDHLTYPFLAKASGRLAKRELAVAVHAQIAKTGYESDLFISNSLIHMYGSCGDIVYAREVFDGMPTKMSVSWNSMLDGYAKCGEMNMARQVFELMPERNVVSWSALIDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQSDVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQMPLEPTASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEARTTREAMETRGVKKYPGWSFVE
Disordered region (IsUnstruct)
****SALSYLGNIDYSCKVLSHLSNPRIFYWNTVIRGYSKSKNPNKSISLFVKMLRAGVSPDHLTYPFLAKASGRLAKRELAVAVHAQIAKTGYESDLFISNSLIHMYGSCGDIVYAREVFDGMPTKMSVSWNSMLDGYAKCGEMNMARQVFELMPERNVVSWSALIDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQSDVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQMPLEPTASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEART********************
Disordered Region (DISOPRED)
MLSFSALSYLGNIDYSCKVLSHLSNPRIFYWNTVIRGYSKSKNPNKSISLFVKMLRAGVSPDHLTYPFLAKASGRLAKRELAVAVHAQIAKTGYESDLFISNSLIHMYGSCGDIVYAREVFDGMPTKMSVSWNSMLDGYAKCGEMNMARQVFELMPERNVVSWSALIDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQSDVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQMPLEPTASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEARTTREAMETRGVKKYPGWSFVE
Disordered Region (DISEMBL)
MLSFSALSYLGNIDYSCKVLSHLSNPRIFYWNTVIRGYSKSKNPNKSISLFVKMLRAGVSPDHLTYPFLAKASGRLAKRELAVAVHAQIAKTGYESDLFISNSLIHMYGSCGDIVYAREVFDGMPTKMSVSWNSMLDGYAKCGEMNMARQVFELMPERNVVSWSALIDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQSDVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQMPLEPTASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEARTTREAMETRGVKKYPGWSFVE
Disordered Region (DISPRO)
MLSFSALSYLGNIDYSCKVLSHLSNPRIFYWNTVIRGYSKSKNPNKSISLFVKMLRAGVSPDHLTYPFLAKASGRLAKRELAVAVHAQIAKTGYESDLFISNSLIHMYGSCGDIVYAREVFDGMPTKMSVSWNSMLDGYAKCGEMNMARQVFELMPERNVVSWSALIDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQSDVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQMPLEPTASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEARTTREAMETRGVKKYPGWSFVE
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHoooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MLSFSALSYLGNIDYSCKVLSHLSNPRIFYWNTVIRGYSKSKNPNKSISLFVKMLRAGVSPDHLTYPFLAKASGRLAKRELAVAVHAQIAKTGYESDLFISNSLIHMYGSCGDIVYAREVFDGMPTKMSVSWNSMLDGYAKCGEMNMARQVFELMPERNVVSWSALIDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQSDVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQMPLEPTASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEARTTREAMETRGVKKYPGWSFVE
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	440	2.2.26 [Sep-21-2011]
P0C8Q7	534	Pentatricopeptide repeat-	yes	no	0.997	0.822	0.611	1e-158
Q9FG16	622	Pentatricopeptide repeat-	no	no	0.968	0.684	0.398	1e-101
Q9FJY7	620	Pentatricopeptide repeat-	no	no	0.965	0.685	0.413	3e-94
Q9CA54	643	Pentatricopeptide repeat-	no	no	0.986	0.674	0.376	1e-93
O82380	738	Pentatricopeptide repeat-	no	no	0.972	0.579	0.386	2e-92
Q9SJG6	559	Pentatricopeptide repeat-	no	no	0.970	0.763	0.405	2e-90
Q683I9	573	Pentatricopeptide repeat-	no	no	0.934	0.717	0.426	2e-90
Q9SJZ3	681	Pentatricopeptide repeat-	no	no	0.972	0.628	0.399	2e-90
Q9SIL5	534	Pentatricopeptide repeat-	no	no	0.970	0.799	0.380	5e-88
Q9LXF2	548	Pentatricopeptide repeat-	no	no	0.984	0.790	0.367	2e-87

>sp|P0C8Q7|PP369_ARATH Pentatricopeptide repeat-containing protein At5g08305 OS=Arabidopsis thaliana GN=PCMP-E105 PE=2 SV=1

 Score =  558 bits (1438), Expect = e-158,   Method: Compositional matrix adjust.
 Identities = 269/440 (61%), Positives = 349/440 (79%), Gaps = 1/440 (0%)

Query: 2   LSFSALSYLGNIDYSCKVLSHLSNPRIFYWNTVIRGYSKSKNPNKSISLFVKMLRAGVSP 61
           LSFSALS  G++DY+ K LS LS+P  + WN VIRG+S S+NP KSIS++++MLR G+ P
Sbjct: 47  LSFSALSSSGDVDYAYKFLSKLSDPPNYGWNFVIRGFSNSRNPEKSISVYIQMLRFGLLP 106

Query: 62  DHLTYPFLAKASGRLAKRELAVAVHAQIAKTGYESDLFISNSLIHMYGSCGDIVYAREVF 121
           DH+TYPFL K+S RL+ R+L  ++H  + K+G E DLFI N+LIHMYGS  D   AR++F
Sbjct: 107 DHMTYPFLMKSSSRLSNRKLGGSLHCSVVKSGLEWDLFICNTLIHMYGSFRDQASARKLF 166

Query: 122 DGMPTKMSVSWNSMLDGYAKCGEMNMARQVFELMPERNVVSWSALIDGYVKCGDYKEALV 181
           D MP K  V+WNS+LD YAK G++  AR VF+ M ER+VV+WS++IDGYVK G+Y +AL 
Sbjct: 167 DEMPHKNLVTWNSILDAYAKSGDVVSARLVFDEMSERDVVTWSSMIDGYVKRGEYNKALE 226

Query: 182 IFEEMRDVGS-KANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMY 240
           IF++M  +GS KANEVT+VSV+CACAHLGAL++G+ + RY++D  L LT+ LQTSLIDMY
Sbjct: 227 IFDQMMRMGSSKANEVTMVSVICACAHLGALNRGKTVHRYILDVHLPLTVILQTSLIDMY 286

Query: 241 AKCGAIKEALIVFHGVEKHQSDVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEIT 300
           AKCG+I +A  VF+     ++D L+WNA+IGGLA HGF++ESL+LF +M+   I PDEIT
Sbjct: 287 AKCGSIGDAWSVFYRASVKETDALMWNAIIGGLASHGFIRESLQLFHKMRESKIDPDEIT 346

Query: 301 FLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQMP 360
           FL LL+AC+HGGLV EAW+FFKSL + G  PKSEHYACMVD LSRAG V +A++FI +MP
Sbjct: 347 FLCLLAACSHGGLVKEAWHFFKSLKESGAEPKSEHYACMVDVLSRAGLVKDAHDFISEMP 406

Query: 361 LEPTASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEART 420
           ++PT SMLG+LL GC+NHG L+LAE VGKKL+ELQP +DGRYVGL+NVYAI K++  AR+
Sbjct: 407 IKPTGSMLGALLNGCINHGNLELAETVGKKLIELQPHNDGRYVGLANVYAINKQFRAARS 466

Query: 421 TREAMETRGVKKYPGWSFVE 440
            REAME +GVKK  G S ++
Sbjct: 467 MREAMEKKGVKKIAGHSILD 486

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FG16|PP367_ARATH Pentatricopeptide repeat-containing protein At5g06540 OS=Arabidopsis thaliana GN=PCMP-H88 PE=2 SV=1

 Score =  368 bits (945), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 171/429 (39%), Positives = 282/429 (65%), Gaps = 3/429 (0%)

Query: 13  IDYSCKVLSHLSNPRIFYWNTVIRGYSKSKNPNKSISLFVKMLRAGVSPDHLTYPFLAKA 72
           + Y+  + S + NP +F +N +IR +S    P+K+   + +ML++ + PD++T+PFL KA
Sbjct: 67  LGYAYGIFSQIQNPNLFVFNLLIRCFSTGAEPSKAFGFYTQMLKSRIWPDNITFPFLIKA 126

Query: 73  SGRLAKRELAVAVHAQIAKTGYESDLFISNSLIHMYGSCGDIVYAREVFDGMPTKMSVSW 132
           S  +    +    H+QI + G+++D+++ NSL+HMY +CG I  A  +F  M  +  VSW
Sbjct: 127 SSEMECVLVGEQTHSQIVRFGFQNDVYVENSLVHMYANCGFIAAAGRIFGQMGFRDVVSW 186

Query: 133 NSMLDGYAKCGEMNMARQVFELMPERNVVSWSALIDGYVKCGDYKEALVIFEEMRDVGSK 192
            SM+ GY KCG +  AR++F+ MP RN+ +WS +I+GY K   +++A+ +FE M+  G  
Sbjct: 187 TSMVAGYCKCGMVENAREMFDEMPHRNLFTWSIMINGYAKNNCFEKAIDLFEFMKREGVV 246

Query: 193 ANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIV 252
           ANE  +VSV+ +CAHLGAL+ G     Y++   +++ L L T+L+DM+ +CG I++A+ V
Sbjct: 247 ANETVMVSVISSCAHLGALEFGERAYEYVVKSHMTVNLILGTALVDMFWRCGDIEKAIHV 306

Query: 253 FHGVEKHQSDVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGG 312
           F G+   ++D L W+++I GLA+HG   +++  F++M  +G  P ++TF  +LSAC+HGG
Sbjct: 307 FEGLP--ETDSLSWSSIIKGLAVHGHAHKAMHYFSQMISLGFIPRDVTFTAVLSACSHGG 364

Query: 313 LVMEAWYFFKSLGK-RGMVPKSEHYACMVDALSRAGQVTEAYEFICQMPLEPTASMLGSL 371
           LV +    ++++ K  G+ P+ EHY C+VD L RAG++ EA  FI +M ++P A +LG+L
Sbjct: 365 LVEKGLEIYENMKKDHGIEPRLEHYGCIVDMLGRAGKLAEAENFILKMHVKPNAPILGAL 424

Query: 372 LTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEARTTREAMETRGVK 431
           L  C  +   ++AE VG  L++++P+H G YV LSN+YA   +WD+  + R+ M+ + VK
Sbjct: 425 LGACKIYKNTEVAERVGNMLIKVKPEHSGYYVLLSNIYACAGQWDKIESLRDMMKEKLVK 484

Query: 432 KYPGWSFVE 440
           K PGWS +E
Sbjct: 485 KPPGWSLIE 493

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FJY7|PP449_ARATH Pentatricopeptide repeat-containing protein At5g66520 OS=Arabidopsis thaliana GN=PCMP-H61 PE=2 SV=1

 Score =  345 bits (886), Expect = 3e-94,   Method: Compositional matrix adjust.
 Identities = 177/428 (41%), Positives = 259/428 (60%), Gaps = 3/428 (0%)

Query: 13  IDYSCKVLSHLSNPRIFYWNTVIRGYSKSKNPNKSISLFVKMLRAGVSPDHLTYPFLAKA 72
           + Y+  V      P  F WN +IRG+S S  P +S+ L+ +ML +    +  T+P L KA
Sbjct: 65  LPYAQIVFDGFDRPDTFLWNLMIRGFSCSDEPERSLLLYQRMLCSSAPHNAYTFPSLLKA 124

Query: 73  SGRLAKRELAVAVHAQIAKTGYESDLFISNSLIHMYGSCGDIVYAREVFDGMPTKMSVSW 132
              L+  E    +HAQI K GYE+D++  NSLI+ Y   G+   A  +FD +P    VSW
Sbjct: 125 CSNLSAFEETTQIHAQITKLGYENDVYAVNSLINSYAVTGNFKLAHLLFDRIPEPDDVSW 184

Query: 133 NSMLDGYAKCGEMNMARQVFELMPERNVVSWSALIDGYVKCGDYKEALVIFEEMRDVGSK 192
           NS++ GY K G+M++A  +F  M E+N +SW+ +I GYV+    KEAL +F EM++   +
Sbjct: 185 NSVIKGYVKAGKMDIALTLFRKMAEKNAISWTTMISGYVQADMNKEALQLFHEMQNSDVE 244

Query: 193 ANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIV 252
            + V+L + L ACA LGAL+QG+ +  Y+    + +   L   LIDMYAKCG ++EAL V
Sbjct: 245 PDNVSLANALSACAQLGALEQGKWIHSYLNKTRIRMDSVLGCVLIDMYAKCGEMEEALEV 304

Query: 253 FHGVEKHQSDVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGG 312
           F  ++K    V  W A+I G A HG  +E++  F EMQ +GI P+ ITF  +L+AC++ G
Sbjct: 305 FKNIKK--KSVQAWTALISGYAYHGHGREAISKFMEMQKMGIKPNVITFTAVLTACSYTG 362

Query: 313 LVMEAWYFFKSLGKR-GMVPKSEHYACMVDALSRAGQVTEAYEFICQMPLEPTASMLGSL 371
           LV E    F S+ +   + P  EHY C+VD L RAG + EA  FI +MPL+P A + G+L
Sbjct: 363 LVEEGKLIFYSMERDYNLKPTIEHYGCIVDLLGRAGLLDEAKRFIQEMPLKPNAVIWGAL 422

Query: 372 LTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEARTTREAMETRGVK 431
           L  C  H  ++L E +G+ L+ + P H GRYV  +N++A+ K+WD+A  TR  M+ +GV 
Sbjct: 423 LKACRIHKNIELGEEIGEILIAIDPYHGGRYVHKANIHAMDKKWDKAAETRRLMKEQGVA 482

Query: 432 KYPGWSFV 439
           K PG S +
Sbjct: 483 KVPGCSTI 490

Arabidopsis thaliana (taxid: 3702)

>sp|Q9CA54|PP122_ARATH Pentatricopeptide repeat-containing protein At1g74630 OS=Arabidopsis thaliana GN=PCMP-H71 PE=2 SV=1

 Score =  343 bits (881), Expect = 1e-93,   Method: Compositional matrix adjust.
 Identities = 176/468 (37%), Positives = 269/468 (57%), Gaps = 34/468 (7%)

Query: 6   ALSYLGNIDYSCKVLSHLSNPRIFYWNTVIRGYSKSKNPNKSISLFVKMLRAG-VSPDHL 64
           A+S    + Y+ ++L     P  F +NT++RGYS+S  P+ S+++FV+M+R G V PD  
Sbjct: 48  AISISDALPYARRLLLCFPEPDAFMFNTLVRGYSESDEPHNSVAVFVEMMRKGFVFPDSF 107

Query: 65  TYPFLAKASGRLAKRELAVAVHAQIAKTGYESDLFISNSLIHMYGSCG------------ 112
           ++ F+ KA            +H Q  K G ES LF+  +LI MYG CG            
Sbjct: 108 SFAFVIKAVENFRSLRTGFQMHCQALKHGLESHLFVGTTLIGMYGGCGCVEFARKVFDEM 167

Query: 113 -------------------DIVYAREVFDGMPTKMSVSWNSMLDGYAKCGEMNMARQVFE 153
                              D+  ARE+FD M  +   SWN ML GY K GE+  A+++F 
Sbjct: 168 HQPNLVAWNAVITACFRGNDVAGAREIFDKMLVRNHTSWNVMLAGYIKAGELESAKRIFS 227

Query: 154 LMPERNVVSWSALIDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQ 213
            MP R+ VSWS +I G    G + E+ + F E++  G   NEV+L  VL AC+  G+ + 
Sbjct: 228 EMPHRDDVSWSTMIVGIAHNGSFNESFLYFRELQRAGMSPNEVSLTGVLSACSQSGSFEF 287

Query: 214 GRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQSDVLIWNAMIGGL 273
           G+++  ++   G S  + +  +LIDMY++CG +  A +VF G+++ +  ++ W +MI GL
Sbjct: 288 GKILHGFVEKAGYSWIVSVNNALIDMYSRCGNVPMARLVFEGMQEKRC-IVSWTSMIAGL 346

Query: 274 AMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKRGMV-PK 332
           AMHG  +E++ LF EM   G+TPD I+F+ LL AC+H GL+ E   +F  + +   + P+
Sbjct: 347 AMHGQGEEAVRLFNEMTAYGVTPDGISFISLLHACSHAGLIEEGEDYFSEMKRVYHIEPE 406

Query: 333 SEHYACMVDALSRAGQVTEAYEFICQMPLEPTASMLGSLLTGCMNHGKLDLAEIVGKKLV 392
            EHY CMVD   R+G++ +AY+FICQMP+ PTA +  +LL  C +HG ++LAE V ++L 
Sbjct: 407 IEHYGCMVDLYGRSGKLQKAYDFICQMPIPPTAIVWRTLLGACSSHGNIELAEQVKQRLN 466

Query: 393 ELQPDHDGRYVGLSNVYAIFKRWDEARTTREAMETRGVKKYPGWSFVE 440
           EL P++ G  V LSN YA   +W +  + R++M  + +KK   WS VE
Sbjct: 467 ELDPNNSGDLVLLSNAYATAGKWKDVASIRKSMIVQRIKKTTAWSLVE 514

Arabidopsis thaliana (taxid: 3702)

>sp|O82380|PP175_ARATH Pentatricopeptide repeat-containing protein At2g29760, chloroplastic OS=Arabidopsis thaliana GN=PCMP-H33 PE=2 SV=1

 Score =  340 bits (871), Expect = 2e-92,   Method: Compositional matrix adjust.
 Identities = 167/432 (38%), Positives = 266/432 (61%), Gaps = 4/432 (0%)

Query: 11  GNIDYSCKVLSHLSNPRIFYWNTVIRGYSKSKNPNKSISLFVKMLRAGVSPDHLTYPFLA 70
           G++D +CKV + +    +  WN++I G+ +  +P+K++ LF KM    V   H+T   + 
Sbjct: 180 GDLDSACKVFTTIKEKDVVSWNSMINGFVQKGSPDKALELFKKMESEDVKASHVTMVGVL 239

Query: 71  KASGRLAKRELAVAVHAQIAKTGYESDLFISNSLIHMYGSCGDIVYAREVFDGMPTKMSV 130
            A  ++   E    V + I +     +L ++N+++ MY  CG I  A+ +FD M  K +V
Sbjct: 240 SACAKIRNLEFGRQVCSYIEENRVNVNLTLANAMLDMYTKCGSIEDAKRLFDAMEEKDNV 299

Query: 131 SWNSMLDGYAKCGEMNMARQVFELMPERNVVSWSALIDGYVKCGDYKEALVIFEEMR-DV 189
           +W +MLDGYA   +   AR+V   MP++++V+W+ALI  Y + G   EAL++F E++   
Sbjct: 300 TWTTMLDGYAISEDYEAAREVLNSMPQKDIVAWNALISAYEQNGKPNEALIVFHELQLQK 359

Query: 190 GSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEA 249
             K N++TLVS L ACA +GAL+ GR +  Y+   G+ +   + ++LI MY+KCG ++++
Sbjct: 360 NMKLNQITLVSTLSACAQVGALELGRWIHSYIKKHGIRMNFHVTSALIHMYSKCGDLEKS 419

Query: 250 LIVFHGVEKHQSDVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACA 309
             VF+ VEK   DV +W+AMIGGLAMHG   E++++F +MQ   + P+ +TF  +  AC+
Sbjct: 420 REVFNSVEKR--DVFVWSAMIGGLAMHGCGNEAVDMFYKMQEANVKPNGVTFTNVFCACS 477

Query: 310 HGGLVMEAWYFFKSL-GKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQMPLEPTASML 368
           H GLV EA   F  +    G+VP+ +HYAC+VD L R+G + +A +FI  MP+ P+ S+ 
Sbjct: 478 HTGLVDEAESLFHQMESNYGIVPEEKHYACIVDVLGRSGYLEKAVKFIEAMPIPPSTSVW 537

Query: 369 GSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEARTTREAMETR 428
           G+LL  C  H  L+LAE+   +L+EL+P +DG +V LSN+YA   +W+     R+ M   
Sbjct: 538 GALLGACKIHANLNLAEMACTRLLELEPRNDGAHVLLSNIYAKLGKWENVSELRKHMRVT 597

Query: 429 GVKKYPGWSFVE 440
           G+KK PG S +E
Sbjct: 598 GLKKEPGCSSIE 609

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SJG6|PP200_ARATH Pentatricopeptide repeat-containing protein At2g42920, chloroplastic OS=Arabidopsis thaliana GN=PCMP-E75 PE=2 SV=1

 Score =  333 bits (854), Expect = 2e-90,   Method: Compositional matrix adjust.
 Identities = 175/432 (40%), Positives = 269/432 (62%), Gaps = 5/432 (1%)

Query: 12  NIDYSCKVLSHLSNPRIFYWNTVIRGYSKSKNPNKSISLFVKML--RAGVSPDHLTYPFL 69
           +++Y+  V + +++   F WNT+IRG+S+S  P  +IS+F+ ML     V P  LTYP +
Sbjct: 73  DMNYAYLVFTRINHKNPFVWNTIIRGFSRSSFPEMAISIFIDMLCSSPSVKPQRLTYPSV 132

Query: 70  AKASGRLAKRELAVAVHAQIAKTGYESDLFISNSLIHMYGSCGDIVYAREVFDGMPTKMS 129
            KA GRL +      +H  + K G E D FI N+++HMY +CG ++ A  +F GM     
Sbjct: 133 FKAYGRLGQARDGRQLHGMVIKEGLEDDSFIRNTMLHMYVTCGCLIEAWRIFLGMIGFDV 192

Query: 130 VSWNSMLDGYAKCGEMNMARQVFELMPERNVVSWSALIDGYVKCGDYKEALVIFEEMRDV 189
           V+WNSM+ G+AKCG ++ A+ +F+ MP+RN VSW+++I G+V+ G +K+AL +F EM++ 
Sbjct: 193 VAWNSMIMGFAKCGLIDQAQNLFDEMPQRNGVSWNSMISGFVRNGRFKDALDMFREMQEK 252

Query: 190 GSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEA 249
             K +  T+VS+L ACA+LGA +QGR +  Y++     L   + T+LIDMY KCG I+E 
Sbjct: 253 DVKPDGFTMVSLLNACAYLGASEQGRWIHEYIVRNRFELNSIVVTALIDMYCKCGCIEEG 312

Query: 250 LIVFHGVEKHQSDVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACA 309
           L VF    K Q  +  WN+MI GLA +GF + +++LF+E++  G+ PD ++F+G+L+ACA
Sbjct: 313 LNVFECAPKKQ--LSCWNSMILGLANNGFEERAMDLFSELERSGLEPDSVSFIGVLTACA 370

Query: 310 HGGLVMEAWYFFKSLGKRGMV-PKSEHYACMVDALSRAGQVTEAYEFICQMPLEPTASML 368
           H G V  A  FF+ + ++ M+ P  +HY  MV+ L  AG + EA   I  MP+E    + 
Sbjct: 371 HSGEVHRADEFFRLMKEKYMIEPSIKHYTLMVNVLGGAGLLEEAEALIKNMPVEEDTVIW 430

Query: 369 GSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEARTTREAMETR 428
            SLL+ C   G +++A+   K L +L PD    YV LSN YA +  ++EA   R  M+ R
Sbjct: 431 SSLLSACRKIGNVEMAKRAAKCLKKLDPDETCGYVLLSNAYASYGLFEEAVEQRLLMKER 490

Query: 429 GVKKYPGWSFVE 440
            ++K  G S +E
Sbjct: 491 QMEKEVGCSSIE 502

Arabidopsis thaliana (taxid: 3702)

>sp|Q683I9|PP295_ARATH Pentatricopeptide repeat-containing protein At3g62890 OS=Arabidopsis thaliana GN=PCMP-H82 PE=2 SV=1

 Score =  333 bits (853), Expect = 2e-90,   Method: Compositional matrix adjust.
 Identities = 180/422 (42%), Positives = 254/422 (60%), Gaps = 11/422 (2%)

Query: 29  FYWNTVIRGYS---KSKNPNKSISLFVKMLRAGVSPDHLTYPFLAKASGRLAKRELAVAV 85
           F WN +IR       S   +  IS++++M    VSPD  T+PFL  +        L    
Sbjct: 25  FLWNIIIRAIVHNVSSPQRHSPISVYLRMRNHRVSPDFHTFPFLLPSFHNPLHLPLGQRT 84

Query: 86  HAQIAKTGYESDLFISNSLIHMYGSCGDIVYAREVFDGMPTKMSVSWNSMLDGYAKCGEM 145
           HAQI   G + D F+  SL++MY SCGD+  A+ VFD   +K   +WNS+++ YAK G +
Sbjct: 85  HAQILLFGLDKDPFVRTSLLNMYSSCGDLRSAQRVFDDSGSKDLPAWNSVVNAYAKAGLI 144

Query: 146 NMARQVFELMPERNVVSWSALIDGYVKCGDYKEALVIFEEMR-----DVGSKANEVTLVS 200
           + AR++F+ MPERNV+SWS LI+GYV CG YKEAL +F EM+     +   + NE T+ +
Sbjct: 145 DDARKLFDEMPERNVISWSCLINGYVMCGKYKEALDLFREMQLPKPNEAFVRPNEFTMST 204

Query: 201 VLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQ 260
           VL AC  LGAL+QG+ +  Y+    + + + L T+LIDMYAKCG+++ A  VF+ +   +
Sbjct: 205 VLSACGRLGALEQGKWVHAYIDKYHVEIDIVLGTALIDMYAKCGSLERAKRVFNALGS-K 263

Query: 261 SDVLIWNAMIGGLAMHGFVKESLELFTEMQIV-GITPDEITFLGLLSACAHGGLVMEAWY 319
            DV  ++AMI  LAM+G   E  +LF+EM     I P+ +TF+G+L AC H GL+ E   
Sbjct: 264 KDVKAYSAMICCLAMYGLTDECFQLFSEMTTSDNINPNSVTFVGILGACVHRGLINEGKS 323

Query: 320 FFKSLGKR-GMVPKSEHYACMVDALSRAGQVTEAYEFICQMPLEPTASMLGSLLTGCMNH 378
           +FK + +  G+ P  +HY CMVD   R+G + EA  FI  MP+EP   + GSLL+G    
Sbjct: 324 YFKMMIEEFGITPSIQHYGCMVDLYGRSGLIKEAESFIASMPMEPDVLIWGSLLSGSRML 383

Query: 379 GKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEARTTREAMETRGVKKYPGWSF 438
           G +   E   K+L+EL P + G YV LSNVYA   RW E +  R  ME +G+ K PG S+
Sbjct: 384 GDIKTCEGALKRLIELDPMNSGAYVLLSNVYAKTGRWMEVKCIRHEMEVKGINKVPGCSY 443

Query: 439 VE 440
           VE
Sbjct: 444 VE 445

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SJZ3|PP169_ARATH Pentatricopeptide repeat-containing protein At2g22410, mitochondrial OS=Arabidopsis thaliana GN=PCMP-E28 PE=2 SV=1

 Score =  333 bits (853), Expect = 2e-90,   Method: Compositional matrix adjust.
 Identities = 172/431 (39%), Positives = 255/431 (59%), Gaps = 3/431 (0%)

Query: 11  GNIDYSCKVLSHLSNPRIFYWNTVIRGYSKSKNPNKSISLFVKMLRAGVSPDHLTYPFLA 70
           G+++ + KV        +  WN +I GY K     K+I ++  M   GV PD +T   L 
Sbjct: 205 GDMENARKVFDESPVRDLVSWNCLINGYKKIGEAEKAIYVYKLMESEGVKPDDVTMIGLV 264

Query: 71  KASGRLAKRELAVAVHAQIAKTGYESDLFISNSLIHMYGSCGDIVYAREVFDGMPTKMSV 130
            +   L         +  + + G    + + N+L+ M+  CGDI  AR +FD +  +  V
Sbjct: 265 SSCSMLGDLNRGKEFYEYVKENGLRMTIPLVNALMDMFSKCGDIHEARRIFDNLEKRTIV 324

Query: 131 SWNSMLDGYAKCGEMNMARQVFELMPERNVVSWSALIDGYVKCGDYKEALVIFEEMRDVG 190
           SW +M+ GYA+CG ++++R++F+ M E++VV W+A+I G V+    ++AL +F+EM+   
Sbjct: 325 SWTTMISGYARCGLLDVSRKLFDDMEEKDVVLWNAMIGGSVQAKRGQDALALFQEMQTSN 384

Query: 191 SKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEAL 250
           +K +E+T++  L AC+ LGALD G  + RY+    LSL + L TSL+DMYAKCG I EAL
Sbjct: 385 TKPDEITMIHCLSACSQLGALDVGIWIHRYIEKYSLSLNVALGTSLVDMYAKCGNISEAL 444

Query: 251 IVFHGVEKHQSDVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAH 310
            VFHG++   S  L + A+IGGLA+HG    ++  F EM   GI PDEITF+GLLSAC H
Sbjct: 445 SVFHGIQTRNS--LTYTAIIGGLALHGDASTAISYFNEMIDAGIAPDEITFIGLLSACCH 502

Query: 311 GGLVMEAWYFFKSLGKR-GMVPKSEHYACMVDALSRAGQVTEAYEFICQMPLEPTASMLG 369
           GG++     +F  +  R  + P+ +HY+ MVD L RAG + EA   +  MP+E  A++ G
Sbjct: 503 GGMIQTGRDYFSQMKSRFNLNPQLKHYSIMVDLLGRAGLLEEADRLMESMPMEADAAVWG 562

Query: 370 SLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEARTTREAMETRG 429
           +LL GC  HG ++L E   KKL+EL P   G YV L  +Y     W++A+  R  M  RG
Sbjct: 563 ALLFGCRMHGNVELGEKAAKKLLELDPSDSGIYVLLDGMYGEANMWEDAKRARRMMNERG 622

Query: 430 VKKYPGWSFVE 440
           V+K PG S +E
Sbjct: 623 VEKIPGCSSIE 633

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SIL5|PP165_ARATH Pentatricopeptide repeat-containing protein At2g20540 OS=Arabidopsis thaliana GN=PCMP-E78 PE=2 SV=1

 Score =  325 bits (832), Expect = 5e-88,   Method: Compositional matrix adjust.
 Identities = 164/431 (38%), Positives = 257/431 (59%), Gaps = 4/431 (0%)

Query: 12  NIDYSCKVLSHLSNPRIFYWNTVIRGYSKSKNPNKSISLFVKMLRAGVS-PDHLTYPFLA 70
           ++DY+ ++ + +SNP +F +N++IR Y+ +      I ++ ++LR     PD  T+PF+ 
Sbjct: 57  DMDYATRLFNQVSNPNVFLYNSIIRAYTHNSLYCDVIRIYKQLLRKSFELPDRFTFPFMF 116

Query: 71  KASGRLAKRELAVAVHAQIAKTGYESDLFISNSLIHMYGSCGDIVYAREVFDGMPTKMSV 130
           K+   L    L   VH  + K G    +   N+LI MY    D+V A +VFD M  +  +
Sbjct: 117 KSCASLGSCYLGKQVHGHLCKFGPRFHVVTENALIDMYMKFDDLVDAHKVFDEMYERDVI 176

Query: 131 SWNSMLDGYAKCGEMNMARQVFELMPERNVVSWSALIDGYVKCGDYKEALVIFEEMRDVG 190
           SWNS+L GYA+ G+M  A+ +F LM ++ +VSW+A+I GY   G Y EA+  F EM+  G
Sbjct: 177 SWNSLLSGYARLGQMKKAKGLFHLMLDKTIVSWTAMISGYTGIGCYVEAMDFFREMQLAG 236

Query: 191 SKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEAL 250
            + +E++L+SVL +CA LG+L+ G+ +  Y   +G      +  +LI+MY+KCG I +A+
Sbjct: 237 IEPDEISLISVLPSCAQLGSLELGKWIHLYAERRGFLKQTGVCNALIEMYSKCGVISQAI 296

Query: 251 IVFHGVEKHQSDVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAH 310
            +F  +E    DV+ W+ MI G A HG    ++E F EMQ   + P+ ITFLGLLSAC+H
Sbjct: 297 QLFGQMEG--KDVISWSTMISGYAYHGNAHGAIETFNEMQRAKVKPNGITFLGLLSACSH 354

Query: 311 GGLVMEAWYFFKSLGKRGMV-PKSEHYACMVDALSRAGQVTEAYEFICQMPLEPTASMLG 369
            G+  E   +F  + +   + PK EHY C++D L+RAG++  A E    MP++P + + G
Sbjct: 355 VGMWQEGLRYFDMMRQDYQIEPKIEHYGCLIDVLARAGKLERAVEITKTMPMKPDSKIWG 414

Query: 370 SLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEARTTREAMETRG 429
           SLL+ C   G LD+A +    LVEL+P+  G YV L+N+YA   +W++    R+ +    
Sbjct: 415 SLLSSCRTPGNLDVALVAMDHLVELEPEDMGNYVLLANIYADLGKWEDVSRLRKMIRNEN 474

Query: 430 VKKYPGWSFVE 440
           +KK PG S +E
Sbjct: 475 MKKTPGGSLIE 485

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LXF2|PP385_ARATH Pentatricopeptide repeat-containing protein At5g15300 OS=Arabidopsis thaliana GN=PCMP-E40 PE=2 SV=2

 Score =  323 bits (827), Expect = 2e-87,   Method: Compositional matrix adjust.
 Identities = 174/473 (36%), Positives = 271/473 (57%), Gaps = 40/473 (8%)

Query: 5   SALSYLGNIDYSCKVLSHLSNPRIFYWNTVIRGYSKSKNPNKSISLFVKMLRAGVSPDHL 64
           ++LS  G + Y+ K+   +  P +   N V+RG ++S  P K++SL+ +M + GVSPD  
Sbjct: 54  ASLSVPGALKYAHKLFDEIPKPDVSICNHVLRGSAQSMKPEKTVSLYTEMEKRGVSPDRY 113

Query: 65  TYPFLAKASGRLAKRELAVAVHAQIAKTGYESDLFISNSLIHMYGSCGDIVYAREVFDGM 124
           T+ F+ KA  +L  R    A H ++ + G+  + ++ N+LI  + +CGD+  A E+FD  
Sbjct: 114 TFTFVLKACSKLEWRSNGFAFHGKVVRHGFVLNEYVKNALILFHANCGDLGIASELFDDS 173

Query: 125 PTKMSVSWNSMLDGYA-------------------------------KCGEMNMARQVFE 153
                V+W+SM  GYA                               KC EM+ AR++F+
Sbjct: 174 AKAHKVAWSSMTSGYAKRGKIDEAMRLFDEMPYKDQVAWNVMITGCLKCKEMDSARELFD 233

Query: 154 LMPERNVVSWSALIDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQ 213
              E++VV+W+A+I GYV CG  KEAL IF+EMRD G   + VT++S+L ACA LG L+ 
Sbjct: 234 RFTEKDVVTWNAMISGYVNCGYPKEALGIFKEMRDAGEHPDVVTILSLLSACAVLGDLET 293

Query: 214 GRMMLRYMIDKG-----LSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQSDVLIWNA 268
           G+ +  Y+++       + +  P+  +LIDMYAKCG+I  A+ VF GV+    D+  WN 
Sbjct: 294 GKRLHIYILETASVSSSIYVGTPIWNALIDMYAKCGSIDRAIEVFRGVK--DRDLSTWNT 351

Query: 269 MIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKR- 327
           +I GLA+H   + S+E+F EMQ + + P+E+TF+G++ AC+H G V E   +F  +    
Sbjct: 352 LIVGLALH-HAEGSIEMFEEMQRLKVWPNEVTFIGVILACSHSGRVDEGRKYFSLMRDMY 410

Query: 328 GMVPKSEHYACMVDALSRAGQVTEAYEFICQMPLEPTASMLGSLLTGCMNHGKLDLAEIV 387
            + P  +HY CMVD L RAGQ+ EA+ F+  M +EP A +  +LL  C  +G ++L +  
Sbjct: 411 NIEPNIKHYGCMVDMLGRAGQLEEAFMFVESMKIEPNAIVWRTLLGACKIYGNVELGKYA 470

Query: 388 GKKLVELQPDHDGRYVGLSNVYAIFKRWDEARTTREAMETRGVKKYPGWSFVE 440
            +KL+ ++ D  G YV LSN+YA   +WD  +  R+  +   VKK  G S +E
Sbjct: 471 NEKLLSMRKDESGDYVLLSNIYASTGQWDGVQKVRKMFDDTRVKKPTGVSLIE 523

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	440
356574121	548	PREDICTED: pentatricopeptide repeat-cont	1.0	0.802	0.690	0.0
357444867	550	Pentatricopeptide repeat-containing prot	1.0	0.8	0.688	0.0
225465641	539	PREDICTED: pentatricopeptide repeat-cont	1.0	0.816	0.697	0.0
147825156	532	hypothetical protein VITISV_034156 [Viti	1.0	0.827	0.688	1e-180
449445234	542	PREDICTED: pentatricopeptide repeat-cont	1.0	0.811	0.661	1e-178
224094065	438	predicted protein [Populus trichocarpa]	0.802	0.805	0.720	1e-171
334187520	534	pentatricopeptide repeat (PPR) family pr	0.997	0.822	0.611	1e-156
10178273	1280	putative protein [Arabidopsis thaliana]	0.988	0.339	0.600	1e-152
297810935	1281	predicted protein [Arabidopsis lyrata su	0.988	0.339	0.600	1e-151
449507733	442	PREDICTED: pentatricopeptide repeat-cont	0.863	0.859	0.655	1e-150

>gi|356574121|ref|XP_003555200.1| PREDICTED: pentatricopeptide repeat-containing protein At5g08305-like [Glycine max]

 Score =  657 bits (1696), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 304/440 (69%), Positives = 372/440 (84%)

Query: 1   MLSFSALSYLGNIDYSCKVLSHLSNPRIFYWNTVIRGYSKSKNPNKSISLFVKMLRAGVS 60
           +L FSALS  G+I+YS +V S LS+P IF WNT+IRGYS SKNP +S+S+F+KMLR GV+
Sbjct: 52  ILCFSALSNSGDINYSYRVFSQLSSPTIFSWNTIIRGYSNSKNPIQSLSIFLKMLRLGVA 111

Query: 61  PDHLTYPFLAKASGRLAKRELAVAVHAQIAKTGYESDLFISNSLIHMYGSCGDIVYAREV 120
           PD+LTYPFL KAS RL  +E  V+VHA I KTG+ESD FI NSLIHMY +CG+ ++A++V
Sbjct: 112 PDYLTYPFLVKASARLLNQETGVSVHAHIIKTGHESDRFIQNSLIHMYAACGNSMWAQKV 171

Query: 121 FDGMPTKMSVSWNSMLDGYAKCGEMNMARQVFELMPERNVVSWSALIDGYVKCGDYKEAL 180
           FD +  K  VSWNSMLDGYAKCGEM MA++ FE M E++V SWS+LIDGYVK G+Y EA+
Sbjct: 172 FDSIQQKNVVSWNSMLDGYAKCGEMVMAQKAFESMSEKDVRSWSSLIDGYVKAGEYSEAM 231

Query: 181 VIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMY 240
            IFE+M+  G KANEVT+VSV CACAH+GAL++GRM+ +Y++D GL LTL LQTSL+DMY
Sbjct: 232 AIFEKMQSAGPKANEVTMVSVSCACAHMGALEKGRMIYKYIVDNGLPLTLVLQTSLVDMY 291

Query: 241 AKCGAIKEALIVFHGVEKHQSDVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEIT 300
           AKCGAI+EAL++F  V K Q+DVLIWNA+IGGLA HG V+ESL+LF EMQIVGI PDE+T
Sbjct: 292 AKCGAIEEALLIFRRVSKSQTDVLIWNAVIGGLATHGLVEESLKLFKEMQIVGICPDEVT 351

Query: 301 FLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQMP 360
           +L LL+ACAHGGLV EAW+FF+SL K GM P SEHYACMVD L+RAGQ+T AY+FICQMP
Sbjct: 352 YLCLLAACAHGGLVKEAWFFFESLSKCGMTPTSEHYACMVDVLARAGQLTTAYQFICQMP 411

Query: 361 LEPTASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEART 420
            EPTASMLG+LL+GC+NH  L LAEIVG+KL+EL+P+HDGRY+GLSN+YA+ KRWD+AR+
Sbjct: 412 TEPTASMLGALLSGCINHRNLALAEIVGRKLIELEPNHDGRYIGLSNMYAVDKRWDDARS 471

Query: 421 TREAMETRGVKKYPGWSFVE 440
            REAME RGVKK PG+SFVE
Sbjct: 472 MREAMERRGVKKSPGFSFVE 491

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357444867|ref|XP_003592711.1| Pentatricopeptide repeat-containing protein [Medicago truncatula] gi|355481759|gb|AES62962.1| Pentatricopeptide repeat-containing protein [Medicago truncatula]

 Score =  652 bits (1683), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 303/440 (68%), Positives = 369/440 (83%)

Query: 1   MLSFSALSYLGNIDYSCKVLSHLSNPRIFYWNTVIRGYSKSKNPNKSISLFVKMLRAGVS 60
           +LSFSALS  G+IDYS +V S +S+P IF WN +IRGYS SKNP  S+S+F+KMLR GV+
Sbjct: 52  ILSFSALSNSGDIDYSYRVFSQISSPTIFSWNIIIRGYSNSKNPIHSLSIFLKMLRHGVA 111

Query: 61  PDHLTYPFLAKASGRLAKRELAVAVHAQIAKTGYESDLFISNSLIHMYGSCGDIVYAREV 120
           PD+LTYPFL KAS RL+K++  V+VHAQI KTG+ESD FI NSLIHMY SCG+I++A +V
Sbjct: 112 PDYLTYPFLVKASARLSKQKSGVSVHAQIIKTGHESDRFIQNSLIHMYASCGNIMWAHKV 171

Query: 121 FDGMPTKMSVSWNSMLDGYAKCGEMNMARQVFELMPERNVVSWSALIDGYVKCGDYKEAL 180
           F+ M  K  VSWNSMLDGYAKCGEM MA++VFE M ER+V SWS+ IDGYVK G+Y+EA+
Sbjct: 172 FESMQGKNLVSWNSMLDGYAKCGEMAMAQKVFESMQERDVRSWSSFIDGYVKAGEYREAM 231

Query: 181 VIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMY 240
            +FE+MR VG KANEVT+VSVL ACAHLGAL +GRMM +Y+ID  L +T+ LQTSL+DMY
Sbjct: 232 AVFEKMRAVGPKANEVTMVSVLSACAHLGALQKGRMMHQYIIDNLLPMTMVLQTSLVDMY 291

Query: 241 AKCGAIKEALIVFHGVEKHQSDVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEIT 300
           AKCGAI+EAL VF G+ K Q+DV IWNAMIGGLA HG V+ESL+LF EMQ+ GI  DEIT
Sbjct: 292 AKCGAIEEALFVFRGISKSQTDVFIWNAMIGGLATHGLVEESLKLFKEMQMAGIRSDEIT 351

Query: 301 FLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQMP 360
           +L LL+ACAHGGLV EAW FF+SL KRGM P SEHYACMVD L+RAGQ+T AY+FICQ+P
Sbjct: 352 YLCLLAACAHGGLVKEAWNFFESLVKRGMTPTSEHYACMVDVLARAGQLTTAYQFICQIP 411

Query: 361 LEPTASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEART 420
           +EPTASMLG++ +GC+NH   DLAE VG+KL+EL P++DGRY+GLSNVYA+ KRWD++++
Sbjct: 412 IEPTASMLGAIFSGCINHRNFDLAETVGRKLIELDPNNDGRYIGLSNVYAVVKRWDDSKS 471

Query: 421 TREAMETRGVKKYPGWSFVE 440
            REAME RGVKK PG+SFVE
Sbjct: 472 MREAMERRGVKKSPGFSFVE 491

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225465641|ref|XP_002270476.1| PREDICTED: pentatricopeptide repeat-containing protein At5g08305-like [Vitis vinifera]

 Score =  647 bits (1668), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 307/440 (69%), Positives = 364/440 (82%)

Query: 1   MLSFSALSYLGNIDYSCKVLSHLSNPRIFYWNTVIRGYSKSKNPNKSISLFVKMLRAGVS 60
           +LSFSA+S  G+ID+S ++   + +P I  WN++IRG+SK KNPN S+S+FVKMLR GV 
Sbjct: 50  LLSFSAISSWGDIDHSYRIFLQIPSPTISNWNSIIRGFSKGKNPNPSVSVFVKMLRFGVC 109

Query: 61  PDHLTYPFLAKASGRLAKRELAVAVHAQIAKTGYESDLFISNSLIHMYGSCGDIVYAREV 120
           PDHLTYPF+AKA  RL++  LA+AVH +IAK G   D FI+NSLIHMYGSCGDI  AR+V
Sbjct: 110 PDHLTYPFIAKAVARLSELRLALAVHCRIAKEGLWFDRFIANSLIHMYGSCGDIGSARKV 169

Query: 121 FDGMPTKMSVSWNSMLDGYAKCGEMNMARQVFELMPERNVVSWSALIDGYVKCGDYKEAL 180
           FD M  + SVSWN+MLDGYAKCG+++ ARQVFE MP+R+VVSWS++IDG VK G+Y  AL
Sbjct: 170 FDEMLIRNSVSWNAMLDGYAKCGDLDSARQVFESMPDRDVVSWSSMIDGCVKGGEYGVAL 229

Query: 181 VIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMY 240
            IFE MR VG KANEVT+VSVLCACAHLGAL+QGR M +YM+D  +  TL L+TSL+DMY
Sbjct: 230 AIFERMRVVGPKANEVTMVSVLCACAHLGALEQGRTMHQYMVDNTMRFTLVLRTSLMDMY 289

Query: 241 AKCGAIKEALIVFHGVEKHQSDVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEIT 300
           AKCGAI+EA+ VF GV   Q+DVL+WN +IGGLA HG V ESLELF EMQ++GI PDEIT
Sbjct: 290 AKCGAIEEAIAVFRGVPMDQTDVLMWNTIIGGLATHGLVHESLELFKEMQVLGIVPDEIT 349

Query: 301 FLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQMP 360
           +L L SACAHGGLV EAW+FFKSLGK+GMVPKSEHYACMVD LSRAGQ+ EAY+FI QMP
Sbjct: 350 YLCLFSACAHGGLVHEAWHFFKSLGKQGMVPKSEHYACMVDVLSRAGQLAEAYDFIAQMP 409

Query: 361 LEPTASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEART 420
           +EPTASMLG+LL GCMNH + DLAE VG+KL+EL+PDHDGRY+GLSNVYA  K WD AR 
Sbjct: 410 MEPTASMLGALLNGCMNHRRFDLAERVGRKLIELEPDHDGRYIGLSNVYAGVKLWDNARM 469

Query: 421 TREAMETRGVKKYPGWSFVE 440
            REAME RGVKK PG+SFVE
Sbjct: 470 MREAMERRGVKKSPGFSFVE 489

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147825156|emb|CAN75501.1| hypothetical protein VITISV_034156 [Vitis vinifera]

 Score =  637 bits (1643), Expect = e-180,   Method: Compositional matrix adjust.
 Identities = 303/440 (68%), Positives = 360/440 (81%)

Query: 1   MLSFSALSYLGNIDYSCKVLSHLSNPRIFYWNTVIRGYSKSKNPNKSISLFVKMLRAGVS 60
           +LSFSA+S  G+ID+S ++   + +P I  WN++IRG+SK KNPN S+S+FVKMLR GV 
Sbjct: 43  LLSFSAISSWGDIDHSYRIFLQIPSPTISNWNSIIRGFSKGKNPNPSVSVFVKMLRFGVC 102

Query: 61  PDHLTYPFLAKASGRLAKRELAVAVHAQIAKTGYESDLFISNSLIHMYGSCGDIVYAREV 120
           PDHLTYPF+AKA  RL++  LA+AVH +IAK G   D FI+NSLIHMYGSCGDI  AR+V
Sbjct: 103 PDHLTYPFVAKAVARLSELRLALAVHCRIAKEGLWFDRFIANSLIHMYGSCGDIGSARKV 162

Query: 121 FDGMPTKMSVSWNSMLDGYAKCGEMNMARQVFELMPERNVVSWSALIDGYVKCGDYKEAL 180
           FD M  + SVSWN+MLDGYAKCG+++ A QVF  MP+R+VVSWS++IDG VK G+Y  AL
Sbjct: 163 FDEMLIRNSVSWNAMLDGYAKCGDLDSAHQVFXSMPDRDVVSWSSMIDGCVKGGEYGVAL 222

Query: 181 VIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMY 240
            IFE MR VG KAN VT+VSVLCACAHLGAL+ GR M +YM+D  +  TL L+TSL+DMY
Sbjct: 223 AIFERMRVVGPKANXVTMVSVLCACAHLGALEXGRXMHQYMVDNTMRFTLVLRTSLMDMY 282

Query: 241 AKCGAIKEALIVFHGVEKHQSDVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEIT 300
           AKCGAI+EA+ VF GV   Q+DVL+WN +IGGLA HG V ESLELF EMQ++GI PDEIT
Sbjct: 283 AKCGAIEEAIAVFRGVPMDQTDVLMWNTIIGGLATHGLVXESLELFKEMQVLGIVPDEIT 342

Query: 301 FLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQMP 360
           +L L SACAHGGLV EAW+FFKSLGK+GMVPKSEHYACMVD LSRAGQ+ EAY+FI QMP
Sbjct: 343 YLCLFSACAHGGLVHEAWHFFKSLGKQGMVPKSEHYACMVDVLSRAGQLAEAYDFIAQMP 402

Query: 361 LEPTASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEART 420
           +EPTASMLG+LL GCMNH + DLAE VG+KL+EL+PDHDGRY+GLSNVYA  K WD AR 
Sbjct: 403 MEPTASMLGALLNGCMNHRRFDLAERVGRKLIELEPDHDGRYIGLSNVYAGVKLWDNARM 462

Query: 421 TREAMETRGVKKYPGWSFVE 440
            REAME RGVKK PG+SFVE
Sbjct: 463 MREAMERRGVKKSPGFSFVE 482

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449445234|ref|XP_004140378.1| PREDICTED: pentatricopeptide repeat-containing protein At5g08305-like [Cucumis sativus]

 Score =  631 bits (1628), Expect = e-178,   Method: Compositional matrix adjust.
 Identities = 291/440 (66%), Positives = 359/440 (81%)

Query: 1   MLSFSALSYLGNIDYSCKVLSHLSNPRIFYWNTVIRGYSKSKNPNKSISLFVKMLRAGVS 60
           +L FSALS   ++DYS K++ ++ NP  F WNT+IR +S +KNPN SI++F+KML+ GVS
Sbjct: 51  LLLFSALSPARDLDYSYKLILNVPNPTTFNWNTLIRAFSNTKNPNPSITVFIKMLQNGVS 110

Query: 61  PDHLTYPFLAKASGRLAKRELAVAVHAQIAKTGYESDLFISNSLIHMYGSCGDIVYAREV 120
           PD+LTYPFL KA+ +L  +EL +AVH  I K+G+E D FI NSLIHMY SC DI  AR+V
Sbjct: 111 PDYLTYPFLVKATSKLLNQELGMAVHVHIVKSGHEIDKFIQNSLIHMYASCRDIASARKV 170

Query: 121 FDGMPTKMSVSWNSMLDGYAKCGEMNMARQVFELMPERNVVSWSALIDGYVKCGDYKEAL 180
           FD MP K  V+WN+MLDGYAKCG++NMAR+VF LMPE++VVSWS+LIDGYVK   Y EA+
Sbjct: 171 FDEMPRKNLVTWNAMLDGYAKCGDLNMAREVFNLMPEKDVVSWSSLIDGYVKGRVYGEAM 230

Query: 181 VIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMY 240
            +FE M   G  ANEVTLVS LCACAHLGAL+ GRMM RY+++  L LT+ LQTSL+DMY
Sbjct: 231 ALFERMSFDGPMANEVTLVSALCACAHLGALEHGRMMHRYIVENELPLTIVLQTSLVDMY 290

Query: 241 AKCGAIKEALIVFHGVEKHQSDVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEIT 300
           AKCGAI EAL VF      ++DVLIWNA+IGGLA HG +KE++ LF EM++VGI PDEIT
Sbjct: 291 AKCGAIHEALTVFRACSLQEADVLIWNAIIGGLATHGLIKEAMNLFCEMKMVGIVPDEIT 350

Query: 301 FLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQMP 360
           +L LLS CAHGGLV EAWYFF  L K GM+PK EHYACMVDALSRAGQV+EAY+F+CQMP
Sbjct: 351 YLCLLSCCAHGGLVEEAWYFFDCLRKHGMIPKVEHYACMVDALSRAGQVSEAYQFLCQMP 410

Query: 361 LEPTASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEART 420
           ++PT+SMLG+LL+GCM HGKLD+A++VG++LVEL P+HDGRYVGLSN+YA  KRWD+A+ 
Sbjct: 411 VQPTSSMLGALLSGCMKHGKLDIAKVVGRRLVELDPNHDGRYVGLSNIYAADKRWDDAKN 470

Query: 421 TREAMETRGVKKYPGWSFVE 440
            REAME +GVKK PG+SF+E
Sbjct: 471 IREAMERKGVKKSPGFSFIE 490

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224094065|ref|XP_002310070.1| predicted protein [Populus trichocarpa] gi|222852973|gb|EEE90520.1| predicted protein [Populus trichocarpa]

 Score =  607 bits (1566), Expect = e-171,   Method: Compositional matrix adjust.
 Identities = 279/387 (72%), Positives = 331/387 (85%)

Query: 54  MLRAGVSPDHLTYPFLAKASGRLAKRELAVAVHAQIAKTGYESDLFISNSLIHMYGSCGD 113
           ML+ G+ PDHLTYPFLAKA+ RL ++EL V++H  + K+G+E D F++NSLIHMYGSCGD
Sbjct: 1   MLQVGIYPDHLTYPFLAKATSRLLRKELGVSIHGHVIKSGFEIDRFVANSLIHMYGSCGD 60

Query: 114 IVYAREVFDGMPTKMSVSWNSMLDGYAKCGEMNMARQVFELMPERNVVSWSALIDGYVKC 173
           IVYAR+VFDG P K  VSWNSM+DGYAKCG +++AR +F+LMPER+V SWS LIDGY K 
Sbjct: 61  IVYARKVFDGTPVKNLVSWNSMVDGYAKCGYLDLARGLFDLMPERDVRSWSCLIDGYAKS 120

Query: 174 GDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQ 233
           G+Y +A+ +FE+MR  G KANEVT+VSVLCACAHLGALD+GRMM +Y++D G  L L L+
Sbjct: 121 GNYGDAMAVFEKMRTSGPKANEVTMVSVLCACAHLGALDKGRMMHQYLVDNGFELNLVLR 180

Query: 234 TSLIDMYAKCGAIKEALIVFHGVEKHQSDVLIWNAMIGGLAMHGFVKESLELFTEMQIVG 293
           TSLIDMYAKCGA++EA  VF GV   +SDVLIWNAMIGGLA HG VKESL+L+TEMQI G
Sbjct: 181 TSLIDMYAKCGAVEEAFAVFRGVSLRKSDVLIWNAMIGGLATHGLVKESLDLYTEMQIAG 240

Query: 294 ITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAY 353
           I PDEITFL LLSACAHGGLV +A Y F+ LGK GM PK+EHYACMVD ++RAGQV EAY
Sbjct: 241 IKPDEITFLCLLSACAHGGLVKQASYVFEGLGKNGMTPKTEHYACMVDVMARAGQVAEAY 300

Query: 354 EFICQMPLEPTASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFK 413
           +F+CQMPLEPTASMLG+LL+GCMNHGKLDLAE++GKKL+EL P+HDGRYVGLSNVYAI +
Sbjct: 301 QFLCQMPLEPTASMLGALLSGCMNHGKLDLAELIGKKLIELDPEHDGRYVGLSNVYAIGR 360

Query: 414 RWDEARTTREAMETRGVKKYPGWSFVE 440
           RWDEAR  REAME RGVKK PG+SF+E
Sbjct: 361 RWDEARIMREAMERRGVKKTPGYSFLE 387

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|334187520|ref|NP_001190262.1| pentatricopeptide repeat (PPR) family protein [Arabidopsis thaliana] gi|223635618|sp|P0C8Q7.1|PP369_ARATH RecName: Full=Pentatricopeptide repeat-containing protein At5g08305 gi|332003897|gb|AED91280.1| pentatricopeptide repeat (PPR) family protein [Arabidopsis thaliana]

 Score =  558 bits (1438), Expect = e-156,   Method: Compositional matrix adjust.
 Identities = 269/440 (61%), Positives = 349/440 (79%), Gaps = 1/440 (0%)

Query: 2   LSFSALSYLGNIDYSCKVLSHLSNPRIFYWNTVIRGYSKSKNPNKSISLFVKMLRAGVSP 61
           LSFSALS  G++DY+ K LS LS+P  + WN VIRG+S S+NP KSIS++++MLR G+ P
Sbjct: 47  LSFSALSSSGDVDYAYKFLSKLSDPPNYGWNFVIRGFSNSRNPEKSISVYIQMLRFGLLP 106

Query: 62  DHLTYPFLAKASGRLAKRELAVAVHAQIAKTGYESDLFISNSLIHMYGSCGDIVYAREVF 121
           DH+TYPFL K+S RL+ R+L  ++H  + K+G E DLFI N+LIHMYGS  D   AR++F
Sbjct: 107 DHMTYPFLMKSSSRLSNRKLGGSLHCSVVKSGLEWDLFICNTLIHMYGSFRDQASARKLF 166

Query: 122 DGMPTKMSVSWNSMLDGYAKCGEMNMARQVFELMPERNVVSWSALIDGYVKCGDYKEALV 181
           D MP K  V+WNS+LD YAK G++  AR VF+ M ER+VV+WS++IDGYVK G+Y +AL 
Sbjct: 167 DEMPHKNLVTWNSILDAYAKSGDVVSARLVFDEMSERDVVTWSSMIDGYVKRGEYNKALE 226

Query: 182 IFEEMRDVGS-KANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMY 240
           IF++M  +GS KANEVT+VSV+CACAHLGAL++G+ + RY++D  L LT+ LQTSLIDMY
Sbjct: 227 IFDQMMRMGSSKANEVTMVSVICACAHLGALNRGKTVHRYILDVHLPLTVILQTSLIDMY 286

Query: 241 AKCGAIKEALIVFHGVEKHQSDVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEIT 300
           AKCG+I +A  VF+     ++D L+WNA+IGGLA HGF++ESL+LF +M+   I PDEIT
Sbjct: 287 AKCGSIGDAWSVFYRASVKETDALMWNAIIGGLASHGFIRESLQLFHKMRESKIDPDEIT 346

Query: 301 FLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQMP 360
           FL LL+AC+HGGLV EAW+FFKSL + G  PKSEHYACMVD LSRAG V +A++FI +MP
Sbjct: 347 FLCLLAACSHGGLVKEAWHFFKSLKESGAEPKSEHYACMVDVLSRAGLVKDAHDFISEMP 406

Query: 361 LEPTASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEART 420
           ++PT SMLG+LL GC+NHG L+LAE VGKKL+ELQP +DGRYVGL+NVYAI K++  AR+
Sbjct: 407 IKPTGSMLGALLNGCINHGNLELAETVGKKLIELQPHNDGRYVGLANVYAINKQFRAARS 466

Query: 421 TREAMETRGVKKYPGWSFVE 440
            REAME +GVKK  G S ++
Sbjct: 467 MREAMEKKGVKKIAGHSILD 486

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|10178273|emb|CAC08331.1| putative protein [Arabidopsis thaliana]

 Score =  545 bits (1403), Expect = e-152,   Method: Compositional matrix adjust.
 Identities = 262/436 (60%), Positives = 344/436 (78%), Gaps = 1/436 (0%)

Query: 6    ALSYLGNIDYSCKVLSHLSNPRIFYWNTVIRGYSKSKNPNKSISLFVKMLRAGVSPDHLT 65
            A++   ++DY+ K LS LS+P  + WN VIRG+S S+NP KSIS++++MLR G+ PDH+T
Sbjct: 797  AVNVTSDVDYAYKFLSKLSDPPNYGWNFVIRGFSNSRNPEKSISVYIQMLRFGLLPDHMT 856

Query: 66   YPFLAKASGRLAKRELAVAVHAQIAKTGYESDLFISNSLIHMYGSCGDIVYAREVFDGMP 125
            YPFL K+S RL+ R+L  ++H  + K+G E DLFI N+LIHMYGS  D   AR++FD MP
Sbjct: 857  YPFLMKSSSRLSNRKLGGSLHCSVVKSGLEWDLFICNTLIHMYGSFRDQASARKLFDEMP 916

Query: 126  TKMSVSWNSMLDGYAKCGEMNMARQVFELMPERNVVSWSALIDGYVKCGDYKEALVIFEE 185
             K  V+WNS+LD YAK G++  AR VF+ M ER+VV+WS++IDGYVK G+Y +AL IF++
Sbjct: 917  HKNLVTWNSILDAYAKSGDVVSARLVFDEMSERDVVTWSSMIDGYVKRGEYNKALEIFDQ 976

Query: 186  MRDVGS-KANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCG 244
            M  +GS KANEVT+VSV+CACAHLGAL++G+ + RY++D  L LT+ LQTSLIDMYAKCG
Sbjct: 977  MMRMGSSKANEVTMVSVICACAHLGALNRGKTVHRYILDVHLPLTVILQTSLIDMYAKCG 1036

Query: 245  AIKEALIVFHGVEKHQSDVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGL 304
            +I +A  VF+     ++D L+WNA+IGGLA HGF++ESL+LF +M+   I PDEITFL L
Sbjct: 1037 SIGDAWSVFYRASVKETDALMWNAIIGGLASHGFIRESLQLFHKMRESKIDPDEITFLCL 1096

Query: 305  LSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQMPLEPT 364
            L+AC+HGGLV EAW+FFKSL + G  PKSEHYACMVD LSRAG V +A++FI +MP++PT
Sbjct: 1097 LAACSHGGLVKEAWHFFKSLKESGAEPKSEHYACMVDVLSRAGLVKDAHDFISEMPIKPT 1156

Query: 365  ASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEARTTREA 424
             SMLG+LL GC+NHG L+LAE VGKKL+ELQP +DGRYVGL+NVYAI K++  AR+ REA
Sbjct: 1157 GSMLGALLNGCINHGNLELAETVGKKLIELQPHNDGRYVGLANVYAINKQFRAARSMREA 1216

Query: 425  METRGVKKYPGWSFVE 440
            ME +GVKK  G S ++
Sbjct: 1217 MEKKGVKKIAGHSILD 1232

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297810935|ref|XP_002873351.1| predicted protein [Arabidopsis lyrata subsp. lyrata] gi|297319188|gb|EFH49610.1| predicted protein [Arabidopsis lyrata subsp. lyrata]

 Score =  540 bits (1390), Expect = e-151,   Method: Compositional matrix adjust.
 Identities = 262/436 (60%), Positives = 340/436 (77%), Gaps = 1/436 (0%)

Query: 6    ALSYLGNIDYSCKVLSHLSNPRIFYWNTVIRGYSKSKNPNKSISLFVKMLRAGVSPDHLT 65
            A+    +++Y+ K+LS LSNP  + WN VIRG+S SKNP KSI +++++LR+G SPDH+T
Sbjct: 797  AVDATSDVNYAYKLLSKLSNPPDYGWNFVIRGFSNSKNPEKSIRVYIQILRSGFSPDHMT 856

Query: 66   YPFLAKASGRLAKRELAVAVHAQIAKTGYESDLFISNSLIHMYGSCGDIVYAREVFDGMP 125
            YPFL K+S RL+ RE+  ++H  + KTG E DLFISN+LIHMYGS  D   AR++FD MP
Sbjct: 857  YPFLLKSSSRLSNREIGGSLHCSVVKTGLEWDLFISNTLIHMYGSFRDKASARKLFDEMP 916

Query: 126  TKMSVSWNSMLDGYAKCGEMNMARQVFELMPERNVVSWSALIDGYVKCGDYKEALVIFEE 185
             K  V+WNS+LD YAK G++  AR VF+ M  R+VV+WS++IDGYVK G+Y EAL IF++
Sbjct: 917  YKNLVTWNSILDSYAKSGDVVSARLVFDEMTMRDVVTWSSMIDGYVKSGEYNEALEIFDQ 976

Query: 186  MRDVGS-KANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCG 244
            M  +GS KANEVT+VSVLCACAHLG L++G+++ RY++D  L LT+ LQTSLIDMYAKCG
Sbjct: 977  MMRMGSSKANEVTMVSVLCACAHLGELNRGKVVHRYILDVHLPLTVILQTSLIDMYAKCG 1036

Query: 245  AIKEALIVFHGVEKHQSDVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGL 304
            +I +A  VF G    ++D L+WNAMIGGLA HGF++ESL LF +M+   I PDEITFL L
Sbjct: 1037 SIGDAWGVFCGASVKKTDALMWNAMIGGLASHGFIRESLLLFHKMRESEIDPDEITFLCL 1096

Query: 305  LSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQMPLEPT 364
            L+AC+HGGLV EAW+FF SL + G  PKSEHYACMVD LSRAG V +A++FI +M ++PT
Sbjct: 1097 LAACSHGGLVKEAWHFFTSLKESGAEPKSEHYACMVDVLSRAGLVKDAHDFISEMLIKPT 1156

Query: 365  ASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEARTTREA 424
             S+LG+L  GC+NHG L+LAE VGKKL+ELQP +DGRYVGL+NVYAI K++  AR+ REA
Sbjct: 1157 GSVLGALFNGCINHGNLELAETVGKKLIELQPHNDGRYVGLANVYAINKQFGAARSMREA 1216

Query: 425  METRGVKKYPGWSFVE 440
            ME +GVKK  G S ++
Sbjct: 1217 MEKKGVKKIAGHSIIK 1232

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449507733|ref|XP_004163116.1| PREDICTED: pentatricopeptide repeat-containing protein At5g08305-like [Cucumis sativus]

 Score =  536 bits (1381), Expect = e-150,   Method: Compositional matrix adjust.
 Identities = 249/380 (65%), Positives = 305/380 (80%)

Query: 1   MLSFSALSYLGNIDYSCKVLSHLSNPRIFYWNTVIRGYSKSKNPNKSISLFVKMLRAGVS 60
           +L FSALS   ++DYS K++ ++ NP  F WNT+IR +S +KNPN SI++F+KML+ GVS
Sbjct: 51  LLLFSALSPARDLDYSYKLILNVPNPTTFNWNTLIRAFSNTKNPNPSITVFIKMLQNGVS 110

Query: 61  PDHLTYPFLAKASGRLAKRELAVAVHAQIAKTGYESDLFISNSLIHMYGSCGDIVYAREV 120
           PD+LTYPFL KA+ +L  +EL +AVH  I K+G+E D FI NSLIHMY SC DI  AR+V
Sbjct: 111 PDYLTYPFLVKATSKLLNQELGMAVHVHIVKSGHEIDKFIQNSLIHMYASCRDIASARKV 170

Query: 121 FDGMPTKMSVSWNSMLDGYAKCGEMNMARQVFELMPERNVVSWSALIDGYVKCGDYKEAL 180
           FD MP K  V+WN+MLDGYAKCG++NMAR+VF LMPE++VVSWS+LIDGYVK   Y EA+
Sbjct: 171 FDEMPRKNLVTWNAMLDGYAKCGDLNMAREVFNLMPEKDVVSWSSLIDGYVKGRVYGEAM 230

Query: 181 VIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMY 240
            +FE M   G  ANEVTLVS LCACAHLGAL+ GRMM RY+++  L LT+ LQTSL+DMY
Sbjct: 231 ALFERMSFDGPMANEVTLVSALCACAHLGALEHGRMMHRYIVENELPLTIVLQTSLVDMY 290

Query: 241 AKCGAIKEALIVFHGVEKHQSDVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEIT 300
           AKCGAI EAL VF      ++DVLIWNA+IGGLA HG +KE++ LF EM++VGI PDEIT
Sbjct: 291 AKCGAIHEALTVFRACSLQEADVLIWNAIIGGLATHGLIKEAMNLFCEMKMVGIVPDEIT 350

Query: 301 FLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQMP 360
           +L LLS CAHGGLV EAWYFF  L K GM+PK EHYACMVDALSRAGQV+EAY+F+CQMP
Sbjct: 351 YLCLLSCCAHGGLVEEAWYFFDCLRKHGMIPKVEHYACMVDALSRAGQVSEAYQFLCQMP 410

Query: 361 LEPTASMLGSLLTGCMNHGK 380
           ++PT+SMLG+LL+GCM HG 
Sbjct: 411 VQPTSSMLGALLSGCMKHGN 430

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

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	440
TAIR|locus:2144143	622	AT5G06540 [Arabidopsis thalian	0.968	0.684	0.398	7.8e-94
TAIR|locus:2154855	620	AT5G66520 "AT5G66520" [Arabido	0.990	0.703	0.411	3.7e-87
TAIR|locus:2060640	738	OTP81 "ORGANELLE TRANSCRIPT PR	0.972	0.579	0.386	6.2e-85
TAIR|locus:2041198	681	SLO1 "SLOW GROWTH 1" [Arabidop	0.972	0.628	0.399	2.1e-84
TAIR|locus:2081635	573	AT3G62890 [Arabidopsis thalian	0.931	0.715	0.432	2.1e-84
TAIR|locus:2045580	559	AT2G42920 [Arabidopsis thalian	0.993	0.781	0.401	3.4e-84
TAIR|locus:2054789	534	MEF21 "mitochondrial editing f	0.970	0.799	0.380	1.5e-81
TAIR|locus:2093920	687	AT3G15930 "AT3G15930" [Arabido	0.977	0.625	0.388	6.6e-81
TAIR|locus:1009023396	612	AT5G40405 "AT5G40405" [Arabido	0.984	0.707	0.378	3.7e-80
TAIR|locus:2161018	530	AT5G56310 "AT5G56310" [Arabido	0.984	0.816	0.390	3.3e-79

TAIR|locus:2144143 AT5G06540 [Arabidopsis thaliana (taxid:3702)]

 Score = 934 (333.8 bits), Expect = 7.8e-94, P = 7.8e-94
 Identities = 171/429 (39%), Positives = 282/429 (65%)

Query:    13 IDYSCKVLSHLSNPRIFYWNTVIRGYSKSKNPNKSISLFVKMLRAGVSPDHLTYPFLAKA 72
             + Y+  + S + NP +F +N +IR +S    P+K+   + +ML++ + PD++T+PFL KA
Sbjct:    67 LGYAYGIFSQIQNPNLFVFNLLIRCFSTGAEPSKAFGFYTQMLKSRIWPDNITFPFLIKA 126

Query:    73 SGRLAKRELAVAVHAQIAKTGYESDLFISNSLIHMYGSCGDIVYAREVFDGMPTKMSVSW 132
             S  +    +    H+QI + G+++D+++ NSL+HMY +CG I  A  +F  M  +  VSW
Sbjct:   127 SSEMECVLVGEQTHSQIVRFGFQNDVYVENSLVHMYANCGFIAAAGRIFGQMGFRDVVSW 186

Query:   133 NSMLDGYAKCGEMNMARQVFELMPERNVVSWSALIDGYVKCGDYKEALVIFEEMRDVGSK 192
              SM+ GY KCG +  AR++F+ MP RN+ +WS +I+GY K   +++A+ +FE M+  G  
Sbjct:   187 TSMVAGYCKCGMVENAREMFDEMPHRNLFTWSIMINGYAKNNCFEKAIDLFEFMKREGVV 246

Query:   193 ANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIV 252
             ANE  +VSV+ +CAHLGAL+ G     Y++   +++ L L T+L+DM+ +CG I++A+ V
Sbjct:   247 ANETVMVSVISSCAHLGALEFGERAYEYVVKSHMTVNLILGTALVDMFWRCGDIEKAIHV 306

Query:   253 FHGVEKHQSDVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGG 312
             F G+   ++D L W+++I GLA+HG   +++  F++M  +G  P ++TF  +LSAC+HGG
Sbjct:   307 FEGLP--ETDSLSWSSIIKGLAVHGHAHKAMHYFSQMISLGFIPRDVTFTAVLSACSHGG 364

Query:   313 LVMEAWYFFKSLGK-RGMVPKSEHYACMVDALSRAGQVTEAYEFICQMPLEPTASMLGSL 371
             LV +    ++++ K  G+ P+ EHY C+VD L RAG++ EA  FI +M ++P A +LG+L
Sbjct:   365 LVEKGLEIYENMKKDHGIEPRLEHYGCIVDMLGRAGKLAEAENFILKMHVKPNAPILGAL 424

Query:   372 LTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEARTTREAMETRGVK 431
             L  C  +   ++AE VG  L++++P+H G YV LSN+YA   +WD+  + R+ M+ + VK
Sbjct:   425 LGACKIYKNTEVAERVGNMLIKVKPEHSGYYVLLSNIYACAGQWDKIESLRDMMKEKLVK 484

Query:   432 KYPGWSFVE 440
             K PGWS +E
Sbjct:   485 KPPGWSLIE 493

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2154855 AT5G66520 "AT5G66520" [Arabidopsis thaliana (taxid:3702)]

 Score = 871 (311.7 bits), Expect = 3.7e-87, P = 3.7e-87
 Identities = 181/440 (41%), Positives = 264/440 (60%)

Query:     2 LSFSALSYLGN-IDYSCKVLSHLSNPRIFYWNTVIRGYSKSKNPNKSISLFVKMLRAGVS 60
             LSF   S   + + Y+  V      P  F WN +IRG+S S  P +S+ L+ +ML +   
Sbjct:    53 LSFCISSTSSDFLPYAQIVFDGFDRPDTFLWNLMIRGFSCSDEPERSLLLYQRMLCSSAP 112

Query:    61 PDHLTYPFLAKASGRLAKRELAVAVHAQIAKTGYESDLFISNSLIHMYGSCGDIVYAREV 120
              +  T+P L KA   L+  E    +HAQI K GYE+D++  NSLI+ Y   G+   A  +
Sbjct:   113 HNAYTFPSLLKACSNLSAFEETTQIHAQITKLGYENDVYAVNSLINSYAVTGNFKLAHLL 172

Query:   121 FDGMPTKMSVSWNSMLDGYAKCGEMNMARQVFELMPERNVVSWSALIDGYVKCGDYKEAL 180
             FD +P    VSWNS++ GY K G+M++A  +F  M E+N +SW+ +I GYV+    KEAL
Sbjct:   173 FDRIPEPDDVSWNSVIKGYVKAGKMDIALTLFRKMAEKNAISWTTMISGYVQADMNKEAL 232

Query:   181 VIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMY 240
              +F EM++   + + V+L + L ACA LGAL+QG+ +  Y+    + +   L   LIDMY
Sbjct:   233 QLFHEMQNSDVEPDNVSLANALSACAQLGALEQGKWIHSYLNKTRIRMDSVLGCVLIDMY 292

Query:   241 AKCGAIKEALIVFHGVEKHQSDVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEIT 300
             AKCG ++EAL VF  ++K    V  W A+I G A HG  +E++  F EMQ +GI P+ IT
Sbjct:   293 AKCGEMEEALEVFKNIKK--KSVQAWTALISGYAYHGHGREAISKFMEMQKMGIKPNVIT 350

Query:   301 FLGLLSACAHGGLVMEAWYFFKSLGKR-GMVPKSEHYACMVDALSRAGQVTEAYEFICQM 359
             F  +L+AC++ GLV E    F S+ +   + P  EHY C+VD L RAG + EA  FI +M
Sbjct:   351 FTAVLTACSYTGLVEEGKLIFYSMERDYNLKPTIEHYGCIVDLLGRAGLLDEAKRFIQEM 410

Query:   360 PLEPTASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEAR 419
             PL+P A + G+LL  C  H  ++L E +G+ L+ + P H GRYV  +N++A+ K+WD+A 
Sbjct:   411 PLKPNAVIWGALLKACRIHKNIELGEEIGEILIAIDPYHGGRYVHKANIHAMDKKWDKAA 470

Query:   420 TTREAMETRGVKKYPGWSFV 439
              TR  M+ +GV K PG S +
Sbjct:   471 ETRRLMKEQGVAKVPGCSTI 490

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

GO:0016556 "mRNA modification" evidence=RCA

TAIR|locus:2060640 OTP81 "ORGANELLE TRANSCRIPT PROCESSING 81" [Arabidopsis thaliana (taxid:3702)]

 Score = 850 (304.3 bits), Expect = 6.2e-85, P = 6.2e-85
 Identities = 167/432 (38%), Positives = 266/432 (61%)

Query:    11 GNIDYSCKVLSHLSNPRIFYWNTVIRGYSKSKNPNKSISLFVKMLRAGVSPDHLTYPFLA 70
             G++D +CKV + +    +  WN++I G+ +  +P+K++ LF KM    V   H+T   + 
Sbjct:   180 GDLDSACKVFTTIKEKDVVSWNSMINGFVQKGSPDKALELFKKMESEDVKASHVTMVGVL 239

Query:    71 KASGRLAKRELAVAVHAQIAKTGYESDLFISNSLIHMYGSCGDIVYAREVFDGMPTKMSV 130
              A  ++   E    V + I +     +L ++N+++ MY  CG I  A+ +FD M  K +V
Sbjct:   240 SACAKIRNLEFGRQVCSYIEENRVNVNLTLANAMLDMYTKCGSIEDAKRLFDAMEEKDNV 299

Query:   131 SWNSMLDGYAKCGEMNMARQVFELMPERNVVSWSALIDGYVKCGDYKEALVIFEEMR-DV 189
             +W +MLDGYA   +   AR+V   MP++++V+W+ALI  Y + G   EAL++F E++   
Sbjct:   300 TWTTMLDGYAISEDYEAAREVLNSMPQKDIVAWNALISAYEQNGKPNEALIVFHELQLQK 359

Query:   190 GSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEA 249
               K N++TLVS L ACA +GAL+ GR +  Y+   G+ +   + ++LI MY+KCG ++++
Sbjct:   360 NMKLNQITLVSTLSACAQVGALELGRWIHSYIKKHGIRMNFHVTSALIHMYSKCGDLEKS 419

Query:   250 LIVFHGVEKHQSDVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACA 309
               VF+ VEK   DV +W+AMIGGLAMHG   E++++F +MQ   + P+ +TF  +  AC+
Sbjct:   420 REVFNSVEKR--DVFVWSAMIGGLAMHGCGNEAVDMFYKMQEANVKPNGVTFTNVFCACS 477

Query:   310 HGGLVMEAWYFFKSLGKR-GMVPKSEHYACMVDALSRAGQVTEAYEFICQMPLEPTASML 368
             H GLV EA   F  +    G+VP+ +HYAC+VD L R+G + +A +FI  MP+ P+ S+ 
Sbjct:   478 HTGLVDEAESLFHQMESNYGIVPEEKHYACIVDVLGRSGYLEKAVKFIEAMPIPPSTSVW 537

Query:   369 GSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEARTTREAMETR 428
             G+LL  C  H  L+LAE+   +L+EL+P +DG +V LSN+YA   +W+     R+ M   
Sbjct:   538 GALLGACKIHANLNLAEMACTRLLELEPRNDGAHVLLSNIYAKLGKWENVSELRKHMRVT 597

Query:   429 GVKKYPGWSFVE 440
             G+KK PG S +E
Sbjct:   598 GLKKEPGCSSIE 609

GO:0009507 "chloroplast" evidence=ISM;IDA

GO:0031425 "chloroplast RNA processing" evidence=IMP

TAIR|locus:2041198 SLO1 "SLOW GROWTH 1" [Arabidopsis thaliana (taxid:3702)]

 Score = 845 (302.5 bits), Expect = 2.1e-84, P = 2.1e-84
 Identities = 172/431 (39%), Positives = 255/431 (59%)

Query:    11 GNIDYSCKVLSHLSNPRIFYWNTVIRGYSKSKNPNKSISLFVKMLRAGVSPDHLTYPFLA 70
             G+++ + KV        +  WN +I GY K     K+I ++  M   GV PD +T   L 
Sbjct:   205 GDMENARKVFDESPVRDLVSWNCLINGYKKIGEAEKAIYVYKLMESEGVKPDDVTMIGLV 264

Query:    71 KASGRLAKRELAVAVHAQIAKTGYESDLFISNSLIHMYGSCGDIVYAREVFDGMPTKMSV 130
              +   L         +  + + G    + + N+L+ M+  CGDI  AR +FD +  +  V
Sbjct:   265 SSCSMLGDLNRGKEFYEYVKENGLRMTIPLVNALMDMFSKCGDIHEARRIFDNLEKRTIV 324

Query:   131 SWNSMLDGYAKCGEMNMARQVFELMPERNVVSWSALIDGYVKCGDYKEALVIFEEMRDVG 190
             SW +M+ GYA+CG ++++R++F+ M E++VV W+A+I G V+    ++AL +F+EM+   
Sbjct:   325 SWTTMISGYARCGLLDVSRKLFDDMEEKDVVLWNAMIGGSVQAKRGQDALALFQEMQTSN 384

Query:   191 SKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEAL 250
             +K +E+T++  L AC+ LGALD G  + RY+    LSL + L TSL+DMYAKCG I EAL
Sbjct:   385 TKPDEITMIHCLSACSQLGALDVGIWIHRYIEKYSLSLNVALGTSLVDMYAKCGNISEAL 444

Query:   251 IVFHGVEKHQSDVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAH 310
              VFHG++   S  L + A+IGGLA+HG    ++  F EM   GI PDEITF+GLLSAC H
Sbjct:   445 SVFHGIQTRNS--LTYTAIIGGLALHGDASTAISYFNEMIDAGIAPDEITFIGLLSACCH 502

Query:   311 GGLVMEAWYFFKSLGKR-GMVPKSEHYACMVDALSRAGQVTEAYEFICQMPLEPTASMLG 369
             GG++     +F  +  R  + P+ +HY+ MVD L RAG + EA   +  MP+E  A++ G
Sbjct:   503 GGMIQTGRDYFSQMKSRFNLNPQLKHYSIMVDLLGRAGLLEEADRLMESMPMEADAAVWG 562

Query:   370 SLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEARTTREAMETRG 429
             +LL GC  HG ++L E   KKL+EL P   G YV L  +Y     W++A+  R  M  RG
Sbjct:   563 ALLFGCRMHGNVELGEKAAKKLLELDPSDSGIYVLLDGMYGEANMWEDAKRARRMMNERG 622

Query:   430 VKKYPGWSFVE 440
             V+K PG S +E
Sbjct:   623 VEKIPGCSSIE 633

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2081635 AT3G62890 [Arabidopsis thaliana (taxid:3702)]

 Score = 845 (302.5 bits), Expect = 2.1e-84, P = 2.1e-84
 Identities = 183/423 (43%), Positives = 258/423 (60%)

Query:    29 FYWNTVIRGYSKS-KNPNKS--ISLFVKMLRAGVSPDHLTYPFLAKASGRLAKRELAVAV 85
             F WN +IR    +  +P +   IS++++M    VSPD  T+PFL  +        L    
Sbjct:    25 FLWNIIIRAIVHNVSSPQRHSPISVYLRMRNHRVSPDFHTFPFLLPSFHNPLHLPLGQRT 84

Query:    86 HAQIAKTGYESDLFISNSLIHMYGSCGDIVYAREVFDGMPTKMSVSWNSMLDGYAKCGEM 145
             HAQI   G + D F+  SL++MY SCGD+  A+ VFD   +K   +WNS+++ YAK G +
Sbjct:    85 HAQILLFGLDKDPFVRTSLLNMYSSCGDLRSAQRVFDDSGSKDLPAWNSVVNAYAKAGLI 144

Query:   146 NMARQVFELMPERNVVSWSALIDGYVKCGDYKEALVIFEEMR-----DVGSKANEVTLVS 200
             + AR++F+ MPERNV+SWS LI+GYV CG YKEAL +F EM+     +   + NE T+ +
Sbjct:   145 DDARKLFDEMPERNVISWSCLINGYVMCGKYKEALDLFREMQLPKPNEAFVRPNEFTMST 204

Query:   201 VLCACAHLGALDQGRMMLRYMIDK-GLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKH 259
             VL AC  LGAL+QG+ +  Y IDK  + + + L T+LIDMYAKCG+++ A  VF+ +   
Sbjct:   205 VLSACGRLGALEQGKWVHAY-IDKYHVEIDIVLGTALIDMYAKCGSLERAKRVFNALGS- 262

Query:   260 QSDVLIWNAMIGGLAMHGFVKESLELFTEMQIV-GITPDEITFLGLLSACAHGGLVMEAW 318
             + DV  ++AMI  LAM+G   E  +LF+EM     I P+ +TF+G+L AC H GL+ E  
Sbjct:   263 KKDVKAYSAMICCLAMYGLTDECFQLFSEMTTSDNINPNSVTFVGILGACVHRGLINEGK 322

Query:   319 YFFKSLGKR-GMVPKSEHYACMVDALSRAGQVTEAYEFICQMPLEPTASMLGSLLTGCMN 377
              +FK + +  G+ P  +HY CMVD   R+G + EA  FI  MP+EP   + GSLL+G   
Sbjct:   323 SYFKMMIEEFGITPSIQHYGCMVDLYGRSGLIKEAESFIASMPMEPDVLIWGSLLSGSRM 382

Query:   378 HGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEARTTREAMETRGVKKYPGWS 437
              G +   E   K+L+EL P + G YV LSNVYA   RW E +  R  ME +G+ K PG S
Sbjct:   383 LGDIKTCEGALKRLIELDPMNSGAYVLLSNVYAKTGRWMEVKCIRHEMEVKGINKVPGCS 442

Query:   438 FVE 440
             +VE
Sbjct:   443 YVE 445

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2045580 AT2G42920 [Arabidopsis thaliana (taxid:3702)]

 Score = 843 (301.8 bits), Expect = 3.4e-84, P = 3.4e-84
 Identities = 178/443 (40%), Positives = 275/443 (62%)

Query:     1 MLSFSALSYLGNIDYSCKVLSHLSNPRIFYWNTVIRGYSKSKNPNKSISLFVKMLRAG-- 58
             +L+F   S   +++Y+  V + +++   F WNT+IRG+S+S  P  +IS+F+ ML +   
Sbjct:    63 VLAFCCASP-SDMNYAYLVFTRINHKNPFVWNTIIRGFSRSSFPEMAISIFIDMLCSSPS 121

Query:    59 VSPDHLTYPFLAKASGRLAKRELAVAVHAQIAKTGYESDLFISNSLIHMYGSCGDIVYAR 118
             V P  LTYP + KA GRL +      +H  + K G E D FI N+++HMY +CG ++ A 
Sbjct:   122 VKPQRLTYPSVFKAYGRLGQARDGRQLHGMVIKEGLEDDSFIRNTMLHMYVTCGCLIEAW 181

Query:   119 EVFDGMPTKMSVSWNSMLDGYAKCGEMNMARQVFELMPERNVVSWSALIDGYVKCGDYKE 178
              +F GM     V+WNSM+ G+AKCG ++ A+ +F+ MP+RN VSW+++I G+V+ G +K+
Sbjct:   182 RIFLGMIGFDVVAWNSMIMGFAKCGLIDQAQNLFDEMPQRNGVSWNSMISGFVRNGRFKD 241

Query:   179 ALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLID 238
             AL +F EM++   K +  T+VS+L ACA+LGA +QGR +  Y++     L   + T+LID
Sbjct:   242 ALDMFREMQEKDVKPDGFTMVSLLNACAYLGASEQGRWIHEYIVRNRFELNSIVVTALID 301

Query:   239 MYAKCGAIKEALIVFHGVEKHQSDVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDE 298
             MY KCG I+E L VF    K Q  +  WN+MI GLA +GF + +++LF+E++  G+ PD 
Sbjct:   302 MYCKCGCIEEGLNVFECAPKKQ--LSCWNSMILGLANNGFEERAMDLFSELERSGLEPDS 359

Query:   299 ITFLGLLSACAHGGLVMEAWYFFKSLGKRGMV-PKSEHYACMVDALSRAGQVTEAYEFIC 357
             ++F+G+L+ACAH G V  A  FF+ + ++ M+ P  +HY  MV+ L  AG + EA   I 
Sbjct:   360 VSFIGVLTACAHSGEVHRADEFFRLMKEKYMIEPSIKHYTLMVNVLGGAGLLEEAEALIK 419

Query:   358 QMPLEPTASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDE 417
              MP+E    +  SLL+ C   G +++A+   K L +L PD    YV LSN YA +  ++E
Sbjct:   420 NMPVEEDTVIWSSLLSACRKIGNVEMAKRAAKCLKKLDPDETCGYVLLSNAYASYGLFEE 479

Query:   418 ARTTREAMETRGVKKYPGWSFVE 440
             A   R  M+ R ++K  G S +E
Sbjct:   480 AVEQRLLMKERQMEKEVGCSSIE 502

GO:0009507 "chloroplast" evidence=ISM

TAIR|locus:2054789 MEF21 "mitochondrial editing factor 21" [Arabidopsis thaliana (taxid:3702)]

 Score = 818 (293.0 bits), Expect = 1.5e-81, P = 1.5e-81
 Identities = 164/431 (38%), Positives = 257/431 (59%)

Query:    12 NIDYSCKVLSHLSNPRIFYWNTVIRGYSKSKNPNKSISLFVKMLRAGVS-PDHLTYPFLA 70
             ++DY+ ++ + +SNP +F +N++IR Y+ +      I ++ ++LR     PD  T+PF+ 
Sbjct:    57 DMDYATRLFNQVSNPNVFLYNSIIRAYTHNSLYCDVIRIYKQLLRKSFELPDRFTFPFMF 116

Query:    71 KASGRLAKRELAVAVHAQIAKTGYESDLFISNSLIHMYGSCGDIVYAREVFDGMPTKMSV 130
             K+   L    L   VH  + K G    +   N+LI MY    D+V A +VFD M  +  +
Sbjct:   117 KSCASLGSCYLGKQVHGHLCKFGPRFHVVTENALIDMYMKFDDLVDAHKVFDEMYERDVI 176

Query:   131 SWNSMLDGYAKCGEMNMARQVFELMPERNVVSWSALIDGYVKCGDYKEALVIFEEMRDVG 190
             SWNS+L GYA+ G+M  A+ +F LM ++ +VSW+A+I GY   G Y EA+  F EM+  G
Sbjct:   177 SWNSLLSGYARLGQMKKAKGLFHLMLDKTIVSWTAMISGYTGIGCYVEAMDFFREMQLAG 236

Query:   191 SKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEAL 250
              + +E++L+SVL +CA LG+L+ G+ +  Y   +G      +  +LI+MY+KCG I +A+
Sbjct:   237 IEPDEISLISVLPSCAQLGSLELGKWIHLYAERRGFLKQTGVCNALIEMYSKCGVISQAI 296

Query:   251 IVFHGVEKHQSDVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAH 310
              +F  +E    DV+ W+ MI G A HG    ++E F EMQ   + P+ ITFLGLLSAC+H
Sbjct:   297 QLFGQMEG--KDVISWSTMISGYAYHGNAHGAIETFNEMQRAKVKPNGITFLGLLSACSH 354

Query:   311 GGLVMEAWYFFKSLGKRGMV-PKSEHYACMVDALSRAGQVTEAYEFICQMPLEPTASMLG 369
              G+  E   +F  + +   + PK EHY C++D L+RAG++  A E    MP++P + + G
Sbjct:   355 VGMWQEGLRYFDMMRQDYQIEPKIEHYGCLIDVLARAGKLERAVEITKTMPMKPDSKIWG 414

Query:   370 SLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEARTTREAMETRG 429
             SLL+ C   G LD+A +    LVEL+P+  G YV L+N+YA   +W++    R+ +    
Sbjct:   415 SLLSSCRTPGNLDVALVAMDHLVELEPEDMGNYVLLANIYADLGKWEDVSRLRKMIRNEN 474

Query:   430 VKKYPGWSFVE 440
             +KK PG S +E
Sbjct:   475 MKKTPGGSLIE 485

GO:0005739 "mitochondrion" evidence=ISM

GO:0080156 "mitochondrial mRNA modification" evidence=IMP

TAIR|locus:2093920 AT3G15930 "AT3G15930" [Arabidopsis thaliana (taxid:3702)]

 Score = 812 (290.9 bits), Expect = 6.6e-81, P = 6.6e-81
 Identities = 169/435 (38%), Positives = 257/435 (59%)

Query:     8 SYLGNIDYSCKVLSHLSNPRIFYWNTVIRGYSKSKNPNKSISLFVKMLRAGVSPDHLTYP 67
             S  G +D +  V        +F WN +I GY++ K   +SI L V+M R  VSP  +T  
Sbjct:   181 SLCGLMDMARGVFDRRCKEDVFSWNLMISGYNRMKEYEESIELLVEMERNLVSPTSVTLL 240

Query:    68 FLAKASGRLAKRELAVAVHAQIAKTGYESDLFISNSLIHMYGSCGDIVYAREVFDGMPTK 127
              +  A  ++  ++L   VH  +++   E  L + N+L++ Y +CG++  A  +F  M  +
Sbjct:   241 LVLSACSKVKDKDLCKRVHEYVSECKTEPSLRLENALVNAYAACGEMDIAVRIFRSMKAR 300

Query:   128 MSVSWNSMLDGYAKCGEMNMARQVFELMPERNVVSWSALIDGYVKCGDYKEALVIFEEMR 187
               +SW S++ GY + G + +AR  F+ MP R+ +SW+ +IDGY++ G + E+L IF EM+
Sbjct:   301 DVISWTSIVKGYVERGNLKLARTYFDQMPVRDRISWTIMIDGYLRAGCFNESLEIFREMQ 360

Query:   188 DVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKG-LSLTLPLQTSLIDMYAKCGAI 246
               G   +E T+VSVL ACAHLG+L+ G  +  Y IDK  +   + +  +LIDMY KCG  
Sbjct:   361 SAGMIPDEFTMVSVLTACAHLGSLEIGEWIKTY-IDKNKIKNDVVVGNALIDMYFKCGCS 419

Query:   247 KEALIVFHGVEKHQSDVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLS 306
             ++A  VFH ++  Q D   W AM+ GLA +G  +E++++F +MQ + I PD+IT+LG+LS
Sbjct:   420 EKAQKVFHDMD--QRDKFTWTAMVVGLANNGQGQEAIKVFFQMQDMSIQPDDITYLGVLS 477

Query:   307 ACAHGGLVMEAWYFF-KSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQMPLEPTA 365
             AC H G+V +A  FF K      + P   HY CMVD L RAG V EAYE + +MP+ P +
Sbjct:   478 ACNHSGMVDQARKFFAKMRSDHRIEPSLVHYGCMVDMLGRAGLVKEAYEILRKMPMNPNS 537

Query:   366 SMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEARTTREAM 425
              + G+LL     H    +AE+  KK++EL+PD+   Y  L N+YA  KRW + R  R  +
Sbjct:   538 IVWGALLGASRLHNDEPMAELAAKKILELEPDNGAVYALLCNIYAGCKRWKDLREVRRKI 597

Query:   426 ETRGVKKYPGWSFVE 440
                 +KK PG+S +E
Sbjct:   598 VDVAIKKTPGFSLIE 612

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:1009023396 AT5G40405 "AT5G40405" [Arabidopsis thaliana (taxid:3702)]

 Score = 805 (288.4 bits), Expect = 3.7e-80, P = 3.7e-80
 Identities = 166/438 (37%), Positives = 266/438 (60%)

Query:     6 ALSYLGNIDYSCKVLSHLSNPRIFYWNTVIRGYSKSKNPNKSISLFVKMLRAG--VSPDH 63
             ALS    +DY+ ++L     P +F  N++IR + KS  P KS   + ++L +G  + PD+
Sbjct:    49 ALSDHKYLDYANQILDRSEKPTLFALNSMIRAHCKSPVPEKSFDFYRRILSSGNDLKPDN 108

Query:    64 LTYPFLAKASGRLAKRELAVAVHAQIAKTGYESDLFISNSLIHMYGSCGDIVYAREVFDG 123
              T  FL +A   L  RE  + VH    + G+++D  +   LI +Y   G +    +VF+ 
Sbjct:   109 YTVNFLVQACTGLRMRETGLQVHGMTIRRGFDNDPHVQTGLISLYAELGCLDSCHKVFNS 168

Query:   124 MPTKMSVSWNSMLDGYAKCGEMNMARQVFELMPERNVVSWSALIDGYVKCGDYKEALVIF 183
             +P    V   +M+   A+CG++  AR++FE MPER+ ++W+A+I GY + G+ +EAL +F
Sbjct:   169 IPCPDFVCRTAMVTACARCGDVVFARKLFEGMPERDPIAWNAMISGYAQVGESREALNVF 228

Query:   184 EEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKC 243
               M+  G K N V ++SVL AC  LGALDQGR    Y+    + +T+ L T+L+D+YAKC
Sbjct:   229 HLMQLEGVKVNGVAMISVLSACTQLGALDQGRWAHSYIERNKIKITVRLATTLVDLYAKC 288

Query:   244 GAIKEALIVFHGVEKHQSDVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLG 303
             G +++A+ VF G+E  + +V  W++ + GLAM+GF ++ LELF+ M+  G+TP+ +TF+ 
Sbjct:   289 GDMEKAMEVFWGME--EKNVYTWSSALNGLAMNGFGEKCLELFSLMKQDGVTPNAVTFVS 346

Query:   304 LLSACAHGGLVMEAWYFFKSLGKR-GMVPKSEHYACMVDALSRAGQVTEAYEFICQMPLE 362
             +L  C+  G V E    F S+    G+ P+ EHY C+VD  +RAG++ +A   I QMP++
Sbjct:   347 VLRGCSVVGFVDEGQRHFDSMRNEFGIEPQLEHYGCLVDLYARAGRLEDAVSIIQQMPMK 406

Query:   363 PTASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEARTTR 422
             P A++  SLL     +  L+L  +  KK++EL+  + G YV LSN+YA    WD     R
Sbjct:   407 PHAAVWSSLLHASRMYKNLELGVLASKKMLELETANHGAYVLLSNIYADSNDWDNVSHVR 466

Query:   423 EAMETRGVKKYPGWSFVE 440
             ++M+++GV+K PG S +E
Sbjct:   467 QSMKSKGVRKQPGCSVME 484

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2161018 AT5G56310 "AT5G56310" [Arabidopsis thaliana (taxid:3702)]

 Score = 796 (285.3 bits), Expect = 3.3e-79, P = 3.3e-79
 Identities = 172/441 (39%), Positives = 258/441 (58%)

Query:     6 ALSYLGNIDYSCKVLSHLSNPRIFYWNTVIRGYSKSKNPNK---SISLFVKMLRAGVSPD 62
             A S  G++ Y+  V +H   P  +  NT+IR  S    PN    +I+++ K+      PD
Sbjct:    56 ACSNAGHLRYAYSVFTHQPCPNTYLHNTMIRALSLLDEPNAHSIAITVYRKLWALCAKPD 115

Query:    63 HLTYPFLAKASGRLAKRELAVAVHAQIAKTGYESDLFISNSLIHMYGSCGDIVYAREVFD 122
               T+PF+ K + R++       +H Q+   G++S + +   LI MY SCG +  AR++FD
Sbjct:   116 TFTFPFVLKIAVRVSDVWFGRQIHGQVVVFGFDSSVHVVTGLIQMYFSCGGLGDARKMFD 175

Query:   123 GMPTKMSVSWNSMLDGYAKCGEMNMARQVFELMP--ERNVVSWSALIDGYVKCGDYKEAL 180
              M  K    WN++L GY K GEM+ AR + E+MP   RN VSW+ +I GY K G   EA+
Sbjct:   176 EMLVKDVNVWNALLAGYGKVGEMDEARSLLEMMPCWVRNEVSWTCVISGYAKSGRASEAI 235

Query:   181 VIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMY 240
              +F+ M     + +EVTL++VL ACA LG+L+ G  +  Y+  +G++  + L  ++IDMY
Sbjct:   236 EVFQRMLMENVEPDEVTLLAVLSACADLGSLELGERICSYVDHRGMNRAVSLNNAVIDMY 295

Query:   241 AKCGAIKEALIVFHGVEKHQSDVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEIT 300
             AK G I +AL VF  V  ++ +V+ W  +I GLA HG   E+L +F  M   G+ P+++T
Sbjct:   296 AKSGNITKALDVFECV--NERNVVTWTTIIAGLATHGHGAEALAMFNRMVKAGVRPNDVT 353

Query:   301 FLGLLSACAHGGLVMEAWYFFKSL-GKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQM 359
             F+ +LSAC+H G V      F S+  K G+ P  EHY CM+D L RAG++ EA E I  M
Sbjct:   354 FIAILSACSHVGWVDLGKRLFNSMRSKYGIHPNIEHYGCMIDLLGRAGKLREADEVIKSM 413

Query:   360 PLEPTASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEAR 419
             P +  A++ GSLL     H  L+L E    +L++L+P++ G Y+ L+N+Y+   RWDE+R
Sbjct:   414 PFKANAAIWGSLLAASNVHHDLELGERALSELIKLEPNNSGNYMLLANLYSNLGRWDESR 473

Query:   420 TTREAMETRGVKKYPGWSFVE 440
               R  M+  GVKK  G S +E
Sbjct:   474 MMRNMMKGIGVKKMAGESSIE 494

GO:0003674 "molecular_function" evidence=ND

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)
P0C8Q7	PP369_ARATH	No assigned EC number	0.6113	0.9977	0.8220	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: GSVIVG00031853001 SubName- Full=Chromosome undetermined scaffold_60, whole genome shotgun sequence; (542 aa) (Vitis vinifera)

Predicted Functional Partners:

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

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	440
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	1e-85
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	8e-78
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	1e-48
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	2e-46
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	9e-38
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	1e-26
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	9e-25
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	9e-15
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	1e-14
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	8e-14
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	1e-11
pfam13041	50	pfam13041, PPR_2, PPR repeat family	1e-09
pfam13041	50	pfam13041, PPR_2, PPR repeat family	1e-09
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	6e-09
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	1e-08
pfam13041	50	pfam13041, PPR_2, PPR repeat family	1e-08
pfam13041	50	pfam13041, PPR_2, PPR repeat family	1e-06
pfam01535	31	pfam01535, PPR, PPR repeat	4e-06
pfam01535	31	pfam01535, PPR, PPR repeat	2e-05
pfam12854	34	pfam12854, PPR_1, PPR repeat	3e-05
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	5e-05
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	1e-04
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	1e-04
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	2e-04
pfam13812	34	pfam13812, PPR_3, Pentatricopeptide repeat domain	7e-04
pfam01535	31	pfam01535, PPR, PPR repeat	0.001
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	0.001
pfam01535	31	pfam01535, PPR, PPR repeat	0.003

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

 Score =  279 bits (714), Expect = 1e-85
 Identities = 143/436 (32%), Positives = 229/436 (52%), Gaps = 40/436 (9%)

Query: 8   SYLGNIDYSCKVLSHLSNPRIFYWNTVIRGYSKSKNPNKSISLFVKMLRAGVSPDHLTYP 67
             LG+   + KV S +       W  +I GY K+  P+K++  +  M +  VSPD +T  
Sbjct: 334 LSLGSWGEAEKVFSRMETKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIA 393

Query: 68  FLAKASGRLAKRELAVAVHAQIAKTGYESDLFISNSLIHMYGSCGDIVYAREVFDGMPTK 127
            +  A   L   ++ V +H    + G  S + ++N+LI MY                   
Sbjct: 394 SVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMY------------------- 434

Query: 128 MSVSWNSMLDGYAKCGEMNMARQVFELMPERNVVSWSALIDGYVKCGDYK--EALVIFEE 185
                       +KC  ++ A +VF  +PE++V+SW+++I G     + +  EAL+ F +
Sbjct: 435 ------------SKCKCIDKALEVFHNIPEKDVISWTSIIAGL--RLNNRCFEALIFFRQ 480

Query: 186 MRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGA 245
           M  +  K N VTL++ L ACA +GAL  G+ +  +++  G+     L  +L+D+Y +CG 
Sbjct: 481 ML-LTLKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGR 539

Query: 246 IKEALIVFHGVEKHQSDVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLL 305
           +  A   F+  EK   DV+ WN ++ G   HG    ++ELF  M   G+ PDE+TF+ LL
Sbjct: 540 MNYAWNQFNSHEK---DVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLL 596

Query: 306 SACAHGGLVMEAWYFFKSL-GKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQMPLEPT 364
            AC+  G+V +   +F S+  K  + P  +HYAC+VD L RAG++TEAY FI +MP+ P 
Sbjct: 597 CACSRSGMVTQGLEYFHSMEEKYSITPNLKHYACVVDLLGRAGKLTEAYNFINKMPITPD 656

Query: 365 ASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEARTTREA 424
            ++ G+LL  C  H  ++L E+  + + EL P+  G Y+ L N+YA   +WDE    R+ 
Sbjct: 657 PAVWGALLNACRIHRHVELGELAAQHIFELDPNSVGYYILLCNLYADAGKWDEVARVRKT 716

Query: 425 METRGVKKYPGWSFVE 440
           M   G+   PG S+VE
Sbjct: 717 MRENGLTVDPGCSWVE 732

Length = 857

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

 Score =  255 bits (652), Expect = 8e-78
 Identities = 134/414 (32%), Positives = 214/414 (51%), Gaps = 34/414 (8%)

Query: 28  IFYWNTVIRGYSKSKNPNKSISLFVKMLRAGVSPDHLTYPFLAKASGRLAKRELAVAVHA 87
           +  W T+I G   + N  ++ +LF +M   G   +  T+  + +AS  L        +H 
Sbjct: 189 LASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHC 248

Query: 88  QIAKTGYESDLFISNSLIHMYGSCGDIVYAREVFDGMPTKMSVSWNSMLDGYAKCGEMNM 147
            + KTG   D F+S +LI MY  CGDI  AR VFDGMP K +V+WNSML GYA       
Sbjct: 249 CVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPEKTTVAWNSMLAGYA------- 301

Query: 148 ARQVFELMPERNVVSWSALIDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAH 207
                              + GY +     EAL ++ EMRD G   ++ T   ++   + 
Sbjct: 302 -------------------LHGYSE-----EALCLYYEMRDSGVSIDQFTFSIMIRIFSR 337

Query: 208 LGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQSDVLIWN 267
           L  L+  +     +I  G  L +   T+L+D+Y+K G +++A  VF  + +   +++ WN
Sbjct: 338 LALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPR--KNLISWN 395

Query: 268 AMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGK- 326
           A+I G   HG   +++E+F  M   G+ P+ +TFL +LSAC + GL  + W  F+S+ + 
Sbjct: 396 ALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSEN 455

Query: 327 RGMVPKSEHYACMVDALSRAGQVTEAYEFICQMPLEPTASMLGSLLTGCMNHGKLDLAEI 386
             + P++ HYACM++ L R G + EAY  I + P +PT +M  +LLT C  H  L+L  +
Sbjct: 456 HRIKPRAMHYACMIELLGREGLLDEAYAMIRRAPFKPTVNMWAALLTACRIHKNLELGRL 515

Query: 387 VGKKLVELQPDHDGRYVGLSNVYAIFKRWDEARTTREAMETRGVKKYPGWSFVE 440
             +KL  + P+    YV L N+Y    R  EA    E ++ +G+  +P  +++E
Sbjct: 516 AAEKLYGMGPEKLNNYVVLLNLYNSSGRQAEAAKVVETLKRKGLSMHPACTWIE 569

Length = 697

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

 Score =  177 bits (451), Expect = 1e-48
 Identities = 109/393 (27%), Positives = 186/393 (47%), Gaps = 33/393 (8%)

Query: 5   SALSYLGNIDYSCKVLSHLSNPRIFYWNTVIRGYSKSKNPNKSISLFVKMLRAGVSPDHL 64
           S     G + ++  V   +    +F WN ++ GY+K+   ++++ L+ +ML AGV PD  
Sbjct: 129 SMFVRFGELVHAWYVFGKMPERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVY 188

Query: 65  TYPFLAKASGRLAKRELAVAVHAQIAKTGYESDLFISNSLIHMYGSCGDIVYAREVFDGM 124
           T+P + +  G +        VHA + + G+E D+ + N+LI MY  CGD+V AR VFD M
Sbjct: 189 TFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNALITMYVKCGDVVSARLVFDRM 248

Query: 125 PTKMSVSWNSMLDGYAKCGEMNMARQVFELMPERNVVSWSALIDGYVKCGDYKEALVIFE 184
           P +  +SWN+M+ GY + GE                                 E L +F 
Sbjct: 249 PRRDCISWNAMISGYFENGECL-------------------------------EGLELFF 277

Query: 185 EMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCG 244
            MR++    + +T+ SV+ AC  LG    GR M  Y++  G ++ + +  SLI MY   G
Sbjct: 278 TMRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLG 337

Query: 245 AIKEALIVFHGVEKHQSDVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGL 304
           +  EA  VF  +E    D + W AMI G   +G   ++LE +  M+   ++PDEIT   +
Sbjct: 338 SWGEAEKVFSRMET--KDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASV 395

Query: 305 LSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQMPLEPT 364
           LSACA  G +       +   ++G++        +++  S+   + +A E    +P +  
Sbjct: 396 LSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEKDV 455

Query: 365 ASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPD 397
            S    +    +N+   +      + L+ L+P+
Sbjct: 456 ISWTSIIAGLRLNNRCFEALIFFRQMLLTLKPN 488

Length = 857

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

 Score =  171 bits (434), Expect = 2e-46
 Identities = 117/394 (29%), Positives = 181/394 (45%), Gaps = 48/394 (12%)

Query: 11  GNIDYSCKVLSHLSNPRIFYWNTVIRGYSKSKNPNKSISLFVKMLRAGVSPDHLTYPFLA 70
           G++  +  V   +       WN +I GY ++    + + LF  M    V PD +T   + 
Sbjct: 236 GDVVSARLVFDRMPRRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVI 295

Query: 71  KASGRLAKRELAVAVHAQIAKTGYESDLFISNSLIHMYGSCGDIVYAREVFDGMPTKMSV 130
            A   L    L   +H  + KTG+  D+ + NSLI MY S G    A +VF  M TK +V
Sbjct: 296 SACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETKDAV 355

Query: 131 SWNSMLDGYAKCGEMNMARQVFELMPERNVVSWSALIDGYVKCGDYKEALVIFEEMRDVG 190
           SW +M+ GY K G  + A + + LM + NV                              
Sbjct: 356 SWTAMISGYEKNGLPDKALETYALMEQDNV------------------------------ 385

Query: 191 SKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEAL 250
              +E+T+ SVL ACA LG LD G  +      KGL   + +  +LI+MY+KC  I +AL
Sbjct: 386 -SPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKAL 444

Query: 251 IVFHGVEKHQSDVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAH 310
            VFH +   + DV+ W ++I GL ++    E+L  F +M ++ + P+ +T +  LSACA 
Sbjct: 445 EVFHNIP--EKDVISWTSIIAGLRLNNRCFEALIFFRQM-LLTLKPNSVTLIAALSACAR 501

Query: 311 GGLVM-----EAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQMPLEPTA 365
            G +M      A      +G  G +P +     ++D   R G++  A+        E   
Sbjct: 502 IGALMCGKEIHAHVLRTGIGFDGFLPNA-----LLDLYVRCGRMNYAWNQFNSH--EKDV 554

Query: 366 SMLGSLLTGCMNHGKLDLAEIVGKKLVE--LQPD 397
                LLTG + HGK  +A  +  ++VE  + PD
Sbjct: 555 VSWNILLTGYVAHGKGSMAVELFNRMVESGVNPD 588

Length = 857

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

 Score =  145 bits (367), Expect = 9e-38
 Identities = 97/330 (29%), Positives = 158/330 (47%), Gaps = 41/330 (12%)

Query: 65  TYPFLAKASGRLAKRELAVAVHAQIAKTGYESDLFISNSLIHMYGSCGDIVYAREVFDGM 124
           TY  L +A   L       AV+  +  +G+E D ++ N ++ M+  CG ++ AR +FD  
Sbjct: 125 TYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRVLLMHVKCGMLIDARRLFDE- 183

Query: 125 PTKMSVSWNSMLDGYAKCGEMNMARQVFELMPERNVVSWSALIDGYVKCGDYKEALVIFE 184
                                         MPERN+ SW  +I G V  G+Y+EA  +F 
Sbjct: 184 ------------------------------MPERNLASWGTIIGGLVDAGNYREAFALFR 213

Query: 185 EMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCG 244
           EM + GS A   T V +L A A LG+   G+ +   ++  G+     +  +LIDMY+KCG
Sbjct: 214 EMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCG 273

Query: 245 AIKEALIVFHGVEKHQSDVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGL 304
            I++A  VF G+   +   + WN+M+ G A+HG+ +E+L L+ EM+  G++ D+ TF  +
Sbjct: 274 DIEDARCVFDGMP--EKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIM 331

Query: 305 LSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQMPLEPT 364
           +   +   L+  A      L + G          +VD  S+ G++ +A     +MP +  
Sbjct: 332 IRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPRKNL 391

Query: 365 ASMLGSLLTGCMNHGKLDLAEIVGKKLVEL 394
            S   +L+ G  NHG+       G K VE+
Sbjct: 392 ISW-NALIAGYGNHGR-------GTKAVEM 413

Length = 697

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

 Score =  113 bits (283), Expect = 1e-26
 Identities = 63/176 (35%), Positives = 97/176 (55%), Gaps = 2/176 (1%)

Query: 133 NSMLDGYAKCGEMNMARQVFELMPERNVVSWSALIDGYVKCGDYKEALVIFEEMRDVGSK 192
           N+ML  + + GE+  A  VF  MPER++ SW+ L+ GY K G + EAL ++  M   G +
Sbjct: 125 NAMLSMFVRFGELVHAWYVFGKMPERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVR 184

Query: 193 ANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIV 252
            +  T   VL  C  +  L +GR +  +++  G  L + +  +LI MY KCG +  A +V
Sbjct: 185 PDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNALITMYVKCGDVVSARLV 244

Query: 253 FHGVEKHQSDVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSAC 308
           F  + +   D + WNAMI G   +G   E LELF  M+ + + PD +T   ++SAC
Sbjct: 245 FDRMPR--RDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISAC 298

Length = 857

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

 Score =  106 bits (267), Expect = 9e-25
 Identities = 83/335 (24%), Positives = 150/335 (44%), Gaps = 43/335 (12%)

Query: 8   SYLGNIDYSCKVLSHLSNPRIFYWNTVIRGYSKSKNPNKSISLFVKMLRAGVSPDHLTYP 67
           S  G+I+ +  V   +       WN+++ GY+      +++ L+ +M  +GVS D  T+ 
Sbjct: 270 SKCGDIEDARCVFDGMPEKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFS 329

Query: 68  FLAKASGRLAKRELAVAVHAQIAKTGYESDLFISNSLIHMYGSCGDIVYAREVFDGMPTK 127
            + +   RLA  E A   HA + +TG+  D+  + +L+ +Y   G +  AR VFD MP K
Sbjct: 330 IMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPRK 389

Query: 128 MSVSWNSMLDGYAKCGEMNMARQVFELMPERNVVSWSALIDGYVKCGDYKEALVIFEEMR 187
             +SWN+++ GY   G                              G   +A+ +FE M 
Sbjct: 390 NLISWNALIAGYGNHGR-----------------------------GT--KAVEMFERMI 418

Query: 188 DVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMI-DKGLSLTLPLQTSLIDMYAKCGAI 246
             G   N VT ++VL AC + G  +QG  + + M  +  +         +I++  + G +
Sbjct: 419 AEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLL 478

Query: 247 KEALIVFHGVEKHQSDVLIWNAMIGGLAMHGFVKESLEL--FTEMQIVGITPDEI-TFLG 303
            EA          +  V +W A++    +H    ++LEL      ++ G+ P+++  ++ 
Sbjct: 479 DEA-YAMIRRAPFKPTVNMWAALLTACRIH----KNLELGRLAAEKLYGMGPEKLNNYVV 533

Query: 304 LLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYAC 338
           LL+     G   EA    ++L ++G+   S H AC
Sbjct: 534 LLNLYNSSGRQAEAAKVVETLKRKGL---SMHPAC 565

Length = 697

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

 Score = 76.5 bits (188), Expect = 9e-15
 Identities = 63/251 (25%), Positives = 116/251 (46%), Gaps = 23/251 (9%)

Query: 140 AKCGEMNMARQVFELMP----ERNVVSWSALIDGYVKCGDYKEALVIFEEMRDVGSKANE 195
           AK G+++   +VF  M     E NV ++ ALIDG  + G   +A   +  MR    K + 
Sbjct: 483 AKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDR 542

Query: 196 VTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQT------SLIDMYAKCGAIKEA 249
           V   +++ AC   GA+D+   +L  M     + T P+        +L+   A  G +  A
Sbjct: 543 VVFNALISACGQSGAVDRAFDVLAEM----KAETHPIDPDHITVGALMKACANAGQVDRA 598

Query: 250 LIVFHGVEKHQSDV----LIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLL 305
             V+  +  H+ ++     ++   +   +  G    +L ++ +M+  G+ PDE+ F  L+
Sbjct: 599 KEVYQMI--HEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALV 656

Query: 306 SACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAG---QVTEAYEFICQMPLE 362
               H G + +A+   +   K+G+   +  Y+ ++ A S A    +  E YE I  + L 
Sbjct: 657 DVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLR 716

Query: 363 PTASMLGSLLT 373
           PT S + +L+T
Sbjct: 717 PTVSTMNALIT 727

Length = 1060

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

 Score = 76.1 bits (187), Expect = 1e-14
 Identities = 71/295 (24%), Positives = 145/295 (49%), Gaps = 20/295 (6%)

Query: 30  YWNTVIRGYSKSKNPNKSISLFVKMLRAGVSPDHLTYPFL----AKASGRLAKRELAVAV 85
            + T+I   +KS   +    +F +M+ AGV  +  T+  L    A+A G++AK   A   
Sbjct: 474 LYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARA-GQVAK---AFGA 529

Query: 86  HAQIAKTGYESDLFISNSLIHMYGSCGDIVYAREVFDGMPTKMS------VSWNSMLDGY 139
           +  +     + D  + N+LI   G  G +  A +V   M  +        ++  +++   
Sbjct: 530 YGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKAC 589

Query: 140 AKCGEMNMARQVFELMPERNVVS----WSALIDGYVKCGDYKEALVIFEEMRDVGSKANE 195
           A  G+++ A++V++++ E N+      ++  ++   + GD+  AL I+++M+  G K +E
Sbjct: 590 ANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDE 649

Query: 196 VTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHG 255
           V   +++    H G LD+   +L+    +G+ L     +SL+   +     K+AL ++  
Sbjct: 650 VFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYED 709

Query: 256 VE--KHQSDVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSAC 308
           ++  K +  V   NA+I  L     + ++LE+ +EM+ +G+ P+ IT+  LL A 
Sbjct: 710 IKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVAS 764

Length = 1060

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

 Score = 73.0 bits (179), Expect = 8e-14
 Identities = 57/221 (25%), Positives = 98/221 (44%), Gaps = 6/221 (2%)

Query: 161 VSWSALIDGYVKCGDYKEALVIFEEMRDVGS-KANEVTLVSVLCACAHLGALDQGRMMLR 219
           VS  + I+  V CG ++EAL +FE +           T  +++ AC  L ++   + +  
Sbjct: 88  VSLCSQIEKLVACGRHREALELFEILEAGCPFTLPASTYDALVEACIALKSIRCVKAVYW 147

Query: 220 YMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQSDVLIWNAMIGGLAMHGFV 279
           ++   G      +   ++ M+ KCG + +A  +F  +   + ++  W  +IGGL   G  
Sbjct: 148 HVESSGFEPDQYMMNRVLLMHVKCGMLIDARRLFDEMP--ERNLASWGTIIGGLVDAGNY 205

Query: 280 KESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYAC- 338
           +E+  LF EM   G   +  TF+ +L A A  G           + K G+V      +C 
Sbjct: 206 REAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVV-GDTFVSCA 264

Query: 339 MVDALSRAGQVTEAYEFICQMPLEPTASMLGSLLTGCMNHG 379
           ++D  S+ G + +A      MP E T     S+L G   HG
Sbjct: 265 LIDMYSKCGDIEDARCVFDGMP-EKTTVAWNSMLAGYALHG 304

Length = 697

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

 Score = 66.8 bits (163), Expect = 1e-11
 Identities = 36/136 (26%), Positives = 67/136 (49%), Gaps = 2/136 (1%)

Query: 174 GDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQ 233
           G  ++AL + E M+++    +E   V++   C    A+++G  +    +    SL + L 
Sbjct: 65  GQLEQALKLLESMQELRVPVDEDAYVALFRLCEWKRAVEEGSRVCSRALSSHPSLGVRLG 124

Query: 234 TSLIDMYAKCGAIKEALIVFHGVEKHQSDVLIWNAMIGGLAMHGFVKESLELFTEMQIVG 293
            +++ M+ + G +  A  VF  +   + D+  WN ++GG A  G+  E+L L+  M   G
Sbjct: 125 NAMLSMFVRFGELVHAWYVFGKMP--ERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAG 182

Query: 294 ITPDEITFLGLLSACA 309
           + PD  TF  +L  C 
Sbjct: 183 VRPDVYTFPCVLRTCG 198

Length = 857

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

 Score = 53.6 bits (130), Expect = 1e-09
 Identities = 22/48 (45%), Positives = 30/48 (62%), Gaps = 3/48 (6%)

Query: 159 NVVSWSALIDGYVKCGDYKEALVIFEEMRDVGSKANEVT---LVSVLC 203
           +VV+++ LIDGY K G  +EAL +F EM+  G K N  T   L+  LC
Sbjct: 2   DVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLC 49

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

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

 Score = 53.2 bits (129), Expect = 1e-09
 Identities = 19/48 (39%), Positives = 31/48 (64%), Gaps = 4/48 (8%)

Query: 129 SVSWNSMLDGYAKCGEMNMARQVFELMPER----NVVSWSALIDGYVK 172
            V++N+++DGY K G++  A ++F  M +R    NV ++S LIDG  K
Sbjct: 3   VVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 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 = 58.0 bits (140), Expect = 6e-09
 Identities = 67/329 (20%), Positives = 143/329 (43%), Gaps = 37/329 (11%)

Query: 82  AVAVHAQIAKTGYESDLFISNSLIHMYGSCGDIVYAREVFDGMPTKMSVS--------WN 133
           A+ V   + + G ++D  +  +LI      G +    EVF     +M  +        + 
Sbjct: 456 ALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFH----EMVNAGVEANVHTFG 511

Query: 134 SMLDGYAKCGEMNMARQVFELMPERNV----VSWSALIDGYVKCGDYKEALVIFEEMRDV 189
           +++DG A+ G++  A   + +M  +NV    V ++ALI    + G    A  +  EM+  
Sbjct: 512 ALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAE 571

Query: 190 GS--KANEVTLVSVLCACAHLGALDQGR----MMLRYMIDKGLSLTLPLQTSLIDMYAKC 243
                 + +T+ +++ ACA+ G +D+ +    M+  Y I KG   T  + T  ++  ++ 
Sbjct: 572 THPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNI-KG---TPEVYTIAVNSCSQK 627

Query: 244 GAIKEALIVFHGVEKH--QSDVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITF 301
           G    AL ++  ++K   + D + ++A++      G + ++ E+  + +  GI    +++
Sbjct: 628 GDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSY 687

Query: 302 LGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQM-- 359
             L+ AC++     +A   ++ +    + P       ++ AL    Q+ +A E + +M  
Sbjct: 688 SSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKR 747

Query: 360 ----PLEPTASMLGSLLTGCMNHGKLDLA 384
               P   T S+   LL         D+ 
Sbjct: 748 LGLCPNTITYSI---LLVASERKDDADVG 773

Length = 1060

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

 Score = 57.2 bits (138), Expect = 1e-08
 Identities = 60/246 (24%), Positives = 102/246 (41%), Gaps = 54/246 (21%)

Query: 198 LVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVE 257
           L+SV   CA    +D    +LR + + GL     L T+LI   AK G +           
Sbjct: 443 LMSV---CASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKV----------- 488

Query: 258 KHQSDVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEA 317
                    +AM              E+F EM   G+  +  TF  L+  CA  G V +A
Sbjct: 489 ---------DAM-------------FEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKA 526

Query: 318 WYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQM-----PLEPTASMLGSLL 372
           +  +  +  + + P    +  ++ A  ++G V  A++ + +M     P++P    +G+L+
Sbjct: 527 FGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALM 586

Query: 373 TGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKR-------WDEARTTREAM 425
             C N G++D A+ V + +      H+    G   VY I          WD A +  + M
Sbjct: 587 KACANAGQVDRAKEVYQMI------HEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDM 640

Query: 426 ETRGVK 431
           + +GVK
Sbjct: 641 KKKGVK 646

Length = 1060

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

 Score = 50.5 bits (122), Expect = 1e-08
 Identities = 18/49 (36%), Positives = 28/49 (57%)

Query: 262 DVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAH 310
           DV+ +N +I G    G V+E+L+LF EM+  GI P+  T+  L+     
Sbjct: 2   DVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 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 = 45.1 bits (108), Expect = 1e-06
 Identities = 13/36 (36%), Positives = 22/36 (61%)

Query: 31 WNTVIRGYSKSKNPNKSISLFVKMLRAGVSPDHLTY 66
          +NT+I GY K     +++ LF +M + G+ P+  TY
Sbjct: 6  YNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTY 41

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|144943 pfam01535, PPR, PPR repeat

 Score = 42.8 bits (102), Expect = 4e-06
 Identities = 14/30 (46%), Positives = 23/30 (76%)

Query: 161 VSWSALIDGYVKCGDYKEALVIFEEMRDVG 190
           V++++LI GY K G  +EAL +F+EM++ G
Sbjct: 1   VTYNSLISGYCKAGKLEEALELFKEMKEKG 30

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

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

 Score = 40.9 bits (97), Expect = 2e-05
 Identities = 12/31 (38%), Positives = 22/31 (70%)

Query: 130 VSWNSMLDGYAKCGEMNMARQVFELMPERNV 160
           V++NS++ GY K G++  A ++F+ M E+ V
Sbjct: 1   VTYNSLISGYCKAGKLEEALELFKEMKEKGV 31

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

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

 Score = 40.4 bits (96), Expect = 3e-05
 Identities = 11/31 (35%), Positives = 20/31 (64%)

Query: 157 ERNVVSWSALIDGYVKCGDYKEALVIFEEMR 187
           + +VV+++ LIDG  + G   EA+ + +EM 
Sbjct: 4   KPDVVTYNTLIDGLCRAGRVDEAVELLDEME 34

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

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

 Score = 40.1 bits (95), Expect = 5e-05
 Identities = 14/35 (40%), Positives = 24/35 (68%)

Query: 161 VSWSALIDGYVKCGDYKEALVIFEEMRDVGSKANE 195
           V+++ LIDG  K G  +EAL +F+EM++ G + + 
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35

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

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

 Score = 39.0 bits (92), Expect = 1e-04
 Identities = 11/32 (34%), Positives = 19/32 (59%)

Query: 31 WNTVIRGYSKSKNPNKSISLFVKMLRAGVSPD 62
          +NT+I G  K+    +++ LF +M   G+ PD
Sbjct: 3  YNTLIDGLCKAGRVEEALELFKEMKERGIEPD 34

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

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

 Score = 38.6 bits (91), Expect = 1e-04
 Identities = 11/32 (34%), Positives = 21/32 (65%)

Query: 130 VSWNSMLDGYAKCGEMNMARQVFELMPERNVV 161
           V++N+++DG  K G +  A ++F+ M ER + 
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKERGIE 32

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

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

 Score = 43.3 bits (102), Expect = 2e-04
 Identities = 41/226 (18%), Positives = 80/226 (35%), Gaps = 47/226 (20%)

Query: 59  VSPDHLTYPFLAKASGRLAKRELAVAVHAQIAKTGYESDLFISNSLIHMYGSCGDIVYAR 118
           + PDH+T   L KA     + + A  V+  I +   +    +    ++     GD  +A 
Sbjct: 575 IDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFAL 634

Query: 119 EVFDGM------PTKM---------------------------------SVSWNSMLDGY 139
            ++D M      P ++                                 +VS++S++   
Sbjct: 635 SIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGAC 694

Query: 140 AKCGEMNMARQVFE------LMPERNVVSWSALIDGYVKCGDYKEALVIFEEMRDVGSKA 193
           +       A +++E      L P   V + +ALI    +     +AL +  EM+ +G   
Sbjct: 695 SNAKNWKKALELYEDIKSIKLRP--TVSTMNALITALCEGNQLPKALEVLSEMKRLGLCP 752

Query: 194 NEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDM 239
           N +T   +L A       D G  +L    + G+   L +   +  +
Sbjct: 753 NTITYSILLVASERKDDADVGLDLLSQAKEDGIKPNLVMCRCITGL 798

Length = 1060

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

 Score = 36.8 bits (86), Expect = 7e-04
 Identities = 9/32 (28%), Positives = 17/32 (53%)

Query: 130 VSWNSMLDGYAKCGEMNMARQVFELMPERNVV 161
            ++N++L   AK G+ ++A  V E M    + 
Sbjct: 2   ETYNALLLALAKAGDPDLALAVLEEMKASGLK 33

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

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

 Score = 35.9 bits (84), Expect = 0.001
 Identities = 10/29 (34%), Positives = 18/29 (62%)

Query: 31 WNTVIRGYSKSKNPNKSISLFVKMLRAGV 59
          +N++I GY K+    +++ LF +M   GV
Sbjct: 3  YNSLISGYCKAGKLEEALELFKEMKEKGV 31

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

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

 Score = 35.9 bits (84), Expect = 0.001
 Identities = 17/34 (50%), Positives = 22/34 (64%)

Query: 265 IWNAMIGGLAMHGFVKESLELFTEMQIVGITPDE 298
            +N +I GL   G V+E+LELF EM+  GI PD 
Sbjct: 2   TYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35

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

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

 Score = 35.1 bits (82), Expect = 0.003
 Identities = 12/30 (40%), Positives = 20/30 (66%)

Query: 265 IWNAMIGGLAMHGFVKESLELFTEMQIVGI 294
            +N++I G    G ++E+LELF EM+  G+
Sbjct: 2   TYNSLISGYCKAGKLEEALELFKEMKEKGV 31

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	440
PLN03077	857	Protein ECB2; Provisional	100.0
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	100.0
PLN03077	857	Protein ECB2; Provisional	100.0
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
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	100.0
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	100.0
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.95
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.95
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.95
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.95
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.95
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.94
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.93
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.92
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.92
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.92
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.91
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.91
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.91
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.9
PRK14574	822	hmsH outer membrane protein; Provisional	99.88
PRK14574	822	hmsH outer membrane protein; Provisional	99.85
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.84
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.84
KOG2003	840	consensus TPR repeat-containing protein [General f	99.82
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.82
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.8
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.8
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.79
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.79
KOG2076	895	consensus RNA polymerase III transcription factor	99.78
KOG2076	895	consensus RNA polymerase III transcription factor	99.77
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.76
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.75
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.74
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.74
KOG1126	638	consensus DNA-binding cell division cycle control	99.73
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.72
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.72
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.72
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.71
KOG2003	840	consensus TPR repeat-containing protein [General f	99.71
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.71
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.69
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.69
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.68
KOG1126	638	consensus DNA-binding cell division cycle control	99.68
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.66
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.65
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.62
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.62
KOG1129	478	consensus TPR repeat-containing protein [General f	99.61
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.58
KOG2376	652	consensus Signal recognition particle, subunit Srp	99.58
PRK12370	553	invasion protein regulator; Provisional	99.56
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.55
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.54
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	99.54
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.52
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	99.51
KOG1129	478	consensus TPR repeat-containing protein [General f	99.5
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	99.49
PRK12370	553	invasion protein regulator; Provisional	99.49
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.48
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	99.46
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	99.46
KOG2047	835	consensus mRNA splicing factor [RNA processing and	99.45
KOG4340	459	consensus Uncharacterized conserved protein [Funct	99.45
PRK11189	296	lipoprotein NlpI; Provisional	99.44
KOG2047	835	consensus mRNA splicing factor [RNA processing and	99.44
KOG3785	557	consensus Uncharacterized conserved protein [Funct	99.42
PRK11189	296	lipoprotein NlpI; Provisional	99.41
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	99.41
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	99.39
KOG3785	557	consensus Uncharacterized conserved protein [Funct	99.38
PF13041	50	PPR_2: PPR repeat family	99.38
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.37
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.37
PF13041	50	PPR_2: PPR repeat family	99.36
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.36
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	99.35
KOG3616	1636	consensus Selective LIM binding factor [Transcript	99.35
KOG2376	652	consensus Signal recognition particle, subunit Srp	99.34
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	99.32
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	99.29
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.29
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	99.29
KOG1125	579	consensus TPR repeat-containing protein [General f	99.29
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	99.28
KOG4340	459	consensus Uncharacterized conserved protein [Funct	99.25
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	99.24
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	99.14
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	99.13
PRK04841	903	transcriptional regulator MalT; Provisional	99.13
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	99.12
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	99.11
KOG3616	1636	consensus Selective LIM binding factor [Transcript	99.11
PLN02789	320	farnesyltranstransferase	99.06
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	99.05
PRK10370	198	formate-dependent nitrite reductase complex subuni	99.04
KOG1125	579	consensus TPR repeat-containing protein [General f	99.01
KOG1128	777	consensus Uncharacterized conserved protein, conta	99.01
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	99.01
PRK04841	903	transcriptional regulator MalT; Provisional	99.0
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	98.98
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	98.97
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	98.97
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	98.91
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	98.91
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	98.89
PLN02789	320	farnesyltranstransferase	98.89
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.88
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.87
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.86
PRK15359	144	type III secretion system chaperone protein SscB;	98.85
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.84
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.84
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.83
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.83
PRK15359	144	type III secretion system chaperone protein SscB;	98.78
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.75
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.73
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.73
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.73
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.69
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.67
PF12854	34	PPR_1: PPR repeat	98.64
PF12854	34	PPR_1: PPR repeat	98.64
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.62
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.62
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.56
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	98.55
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	98.54
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.54
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.54
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.51
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	98.51
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	98.49
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	98.49
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.44
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.41
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.39
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	98.35
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	98.35
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	98.35
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	98.34
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.31
COG3898	531	Uncharacterized membrane-bound protein [Function u	98.29
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	98.29
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	98.29
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.29
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	98.28
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	98.26
KOG2041	1189	consensus WD40 repeat protein [General function pr	98.24
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	98.23
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.22
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	98.19
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	98.18
KOG0553	304	consensus TPR repeat-containing protein [General f	98.18
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.16
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	98.15
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	98.07
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	98.06
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	98.04
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	98.04
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	98.03
PF13371	73	TPR_9: Tetratricopeptide repeat	98.01
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	98.01
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	98.01
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	98.0
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.99
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	97.98
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	97.98
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.94
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	97.93
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	97.93
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.93
COG4700	251	Uncharacterized protein conserved in bacteria cont	97.93
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	97.92
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	97.91
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.91
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	97.9
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	97.9
PF12688	120	TPR_5: Tetratrico peptide repeat	97.85
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.85
KOG0553	304	consensus TPR repeat-containing protein [General f	97.84
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	97.82
PF12688	120	TPR_5: Tetratrico peptide repeat	97.81
COG4700	251	Uncharacterized protein conserved in bacteria cont	97.81
PRK10803	263	tol-pal system protein YbgF; Provisional	97.81
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.79
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	97.78
PRK15331	165	chaperone protein SicA; Provisional	97.78
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	97.77
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	97.73
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	97.73
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	97.71
KOG2796	366	consensus Uncharacterized conserved protein [Funct	97.65
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	97.65
KOG2796	366	consensus Uncharacterized conserved protein [Funct	97.63
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	97.6
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	97.59
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	97.57
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	97.56
PF13428	44	TPR_14: Tetratricopeptide repeat	97.5
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	97.5
COG3898	531	Uncharacterized membrane-bound protein [Function u	97.48
PRK10803	263	tol-pal system protein YbgF; Provisional	97.47
PF13431	34	TPR_17: Tetratricopeptide repeat	97.46
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	97.42
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	97.42
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	97.41
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	97.37
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	97.33
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	97.32
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	97.3
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	97.29
PF13371	73	TPR_9: Tetratricopeptide repeat	97.29
PF03704	146	BTAD: Bacterial transcriptional activator domain;	97.28
KOG2041	1189	consensus WD40 repeat protein [General function pr	97.27
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	97.22
COG4105	254	ComL DNA uptake lipoprotein [General function pred	97.21
PRK15331	165	chaperone protein SicA; Provisional	97.15
PF03704	146	BTAD: Bacterial transcriptional activator domain;	97.14
PF13512	142	TPR_18: Tetratricopeptide repeat	97.13
KOG1585	308	consensus Protein required for fusion of vesicles	97.11
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	97.07
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	97.05
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	97.05
COG0457	291	NrfG FOG: TPR repeat [General function prediction	97.02
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	96.88
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	96.75
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	96.69
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	96.69
PRK11906	458	transcriptional regulator; Provisional	96.68
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	96.68
KOG4555	175	consensus TPR repeat-containing protein [Function	96.59
KOG1941	518	consensus Acetylcholine receptor-associated protei	96.58
KOG1258	577	consensus mRNA processing protein [RNA processing	96.56
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	96.54
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	96.52
COG0457	291	NrfG FOG: TPR repeat [General function prediction	96.47
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	96.42
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	96.4
KOG2610	491	consensus Uncharacterized conserved protein [Funct	96.39
PRK11906	458	transcriptional regulator; Provisional	96.39
COG3118	304	Thioredoxin domain-containing protein [Posttransla	96.34
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	96.31
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	96.27
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	96.26
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	96.26
KOG3941	406	consensus Intermediate in Toll signal transduction	96.21
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	96.17
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	96.12
KOG1586	288	consensus Protein required for fusion of vesicles	96.11
PF13512	142	TPR_18: Tetratricopeptide repeat	96.09
COG3118	304	Thioredoxin domain-containing protein [Posttransla	96.0
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	95.97
smart00299	140	CLH Clathrin heavy chain repeat homology.	95.92
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	95.89
KOG3941	406	consensus Intermediate in Toll signal transduction	95.88
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	95.87
COG4105	254	ComL DNA uptake lipoprotein [General function pred	95.8
KOG4234	271	consensus TPR repeat-containing protein [General f	95.77
KOG0890	2382	consensus Protein kinase of the PI-3 kinase family	95.77
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	95.7
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	95.7
KOG4555	175	consensus TPR repeat-containing protein [Function	95.69
KOG2610	491	consensus Uncharacterized conserved protein [Funct	95.62
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	95.56
PF13428	44	TPR_14: Tetratricopeptide repeat	95.45
KOG1941	518	consensus Acetylcholine receptor-associated protei	95.4
smart00299	140	CLH Clathrin heavy chain repeat homology.	95.3
KOG1585	308	consensus Protein required for fusion of vesicles	95.16
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	95.15
PRK09687	280	putative lyase; Provisional	95.1
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	95.08
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	95.06
COG3629	280	DnrI DNA-binding transcriptional activator of the	95.02
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	94.93
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	94.9
COG3629	280	DnrI DNA-binding transcriptional activator of the	94.88
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	94.83
PF04097	613	Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic9	94.83
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	94.74
KOG1258	577	consensus mRNA processing protein [RNA processing	94.68
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	94.67
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	94.61
PRK09687	280	putative lyase; Provisional	94.54
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	94.49
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	94.38
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	94.36
PRK11619	644	lytic murein transglycosylase; Provisional	94.36
PRK15180	831	Vi polysaccharide biosynthesis protein TviD; Provi	94.2
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	94.06
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	93.95
KOG4648	536	consensus Uncharacterized conserved protein, conta	93.85
KOG4648	536	consensus Uncharacterized conserved protein, conta	93.76
PF13174	33	TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_	93.7
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	93.4
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	93.39
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	93.3
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	93.23
PF13431	34	TPR_17: Tetratricopeptide repeat	93.0
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	92.95
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	92.94
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	92.8
KOG0890	2382	consensus Protein kinase of the PI-3 kinase family	92.5
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	92.47
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	92.44
KOG2066	846	consensus Vacuolar assembly/sorting protein VPS41	92.34
KOG4570	418	consensus Uncharacterized conserved protein [Funct	92.2
KOG4234	271	consensus TPR repeat-containing protein [General f	92.02
KOG2066	846	consensus Vacuolar assembly/sorting protein VPS41	92.0
KOG1586	288	consensus Protein required for fusion of vesicles	91.98
KOG2396	568	consensus HAT (Half-A-TPR) repeat-containing prote	91.73
PF07721	26	TPR_4: Tetratricopeptide repeat; InterPro: IPR0117	91.72
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	91.66
PF13174	33	TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_	91.55
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	91.49
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	91.36
PRK10941	269	hypothetical protein; Provisional	91.3
PF06552	186	TOM20_plant: Plant specific mitochondrial import r	90.93
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	90.87
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	90.79
COG4455	273	ImpE Protein of avirulence locus involved in tempe	90.73
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	90.7
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	90.58
smart00028	34	TPR Tetratricopeptide repeats. Repeats present in	90.49
PF06552	186	TOM20_plant: Plant specific mitochondrial import r	90.43
TIGR03504	44	FimV_Cterm FimV C-terminal domain. This protein is	90.41
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	90.28
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	90.21
KOG1464	440	consensus COP9 signalosome, subunit CSN2 [Posttran	90.18
KOG1550	552	consensus Extracellular protein SEL-1 and related	90.14
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	90.06
PF07163	309	Pex26: Pex26 protein; InterPro: IPR010797 This fam	89.86
PF10345	608	Cohesin_load: Cohesin loading factor; InterPro: IP	89.79
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	89.78
COG2976	207	Uncharacterized protein conserved in bacteria [Fun	89.36
PF14853	53	Fis1_TPR_C: Fis1 C-terminal tetratricopeptide repe	89.08
COG4455	273	ImpE Protein of avirulence locus involved in tempe	88.89
KOG1550	552	consensus Extracellular protein SEL-1 and related	88.79
COG3947	361	Response regulator containing CheY-like receiver a	88.46
KOG4507	886	consensus Uncharacterized conserved protein, conta	88.43
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	88.28
KOG1464	440	consensus COP9 signalosome, subunit CSN2 [Posttran	88.2
KOG0545	329	consensus Aryl-hydrocarbon receptor-interacting pr	88.14
PRK11619	644	lytic murein transglycosylase; Provisional	88.02
COG2976	207	Uncharacterized protein conserved in bacteria [Fun	87.99
KOG4642	284	consensus Chaperone-dependent E3 ubiquitin protein	87.85
TIGR02508	115	type_III_yscG type III secretion protein, YscG fam	87.42
COG1747	711	Uncharacterized N-terminal domain of the transcrip	87.32
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	87.17
TIGR02508	115	type_III_yscG type III secretion protein, YscG fam	87.04
KOG4570	418	consensus Uncharacterized conserved protein [Funct	86.82
PF14561	90	TPR_20: Tetratricopeptide repeat; PDB: 3QOU_A 2R5S	86.64
PRK13800	897	putative oxidoreductase/HEAT repeat-containing pro	86.58
KOG1308	377	consensus Hsp70-interacting protein Hip/Transient	86.57
COG3947	361	Response regulator containing CheY-like receiver a	86.18
PF09477	116	Type_III_YscG: Bacterial type II secretion system	85.72
TIGR03504	44	FimV_Cterm FimV C-terminal domain. This protein is	85.47
KOG3364	149	consensus Membrane protein involved in organellar	85.43
smart00386	33	HAT HAT (Half-A-TPR) repeats. Present in several R	85.04
KOG0889	3550	consensus Histone acetyltransferase SAGA, TRRAP/TR	84.65
smart00028	34	TPR Tetratricopeptide repeats. Repeats present in	84.64
PF09986	214	DUF2225: Uncharacterized protein conserved in bact	84.12
PF04190	260	DUF410: Protein of unknown function (DUF410) ; Int	83.35
PF10579	80	Rapsyn_N: Rapsyn N-terminal myristoylation and lin	83.0
PRK13800	897	putative oxidoreductase/HEAT repeat-containing pro	82.61
KOG2063	877	consensus Vacuolar assembly/sorting proteins VPS39	82.51
PF09670	379	Cas_Cas02710: CRISPR-associated protein (Cas_Cas02	82.31
KOG0376	476	consensus Serine-threonine phosphatase 2A, catalyt	82.25
cd08819	88	CARD_MDA5_2 Caspase activation and recruitment dom	81.78
PF04190	260	DUF410: Protein of unknown function (DUF410) ; Int	81.4
COG5159	421	RPN6 26S proteasome regulatory complex component [	81.2
KOG4642	284	consensus Chaperone-dependent E3 ubiquitin protein	81.03
PF14669	233	Asp_Glu_race_2: Putative aspartate racemase	80.84
PRK15180	831	Vi polysaccharide biosynthesis protein TviD; Provi	80.65
KOG2471	696	consensus TPR repeat-containing protein [General f	80.52
COG1747	711	Uncharacterized N-terminal domain of the transcrip	80.18

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=6.7e-69  Score=524.95  Aligned_cols=434  Identities=35%  Similarity=0.646  Sum_probs=399.5

Q ss_pred             CcccccccccCChhhHHHHhhhcCCCChHHHHHHHHHHHccCChhhHHHHHHHHHHcCCCCCcchHHHHHHHhhchhcHH
Q 039362            1 MLSFSALSYLGNIDYSCKVLSHLSNPRIFYWNTVIRGYSKSKNPNKSISLFVKMLRAGVSPDHLTYPFLAKASGRLAKRE   80 (440)
Q Consensus         1 l~~~y~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~   80 (440)
                      ||.+|+++  |++++|.++|++|+.||..+||.+|.+|++.|++++|+++|++|.+.|+.||..||+.++.+|++.|+.+
T Consensus       228 Li~~y~k~--g~~~~A~~lf~~m~~~d~~s~n~li~~~~~~g~~~eAl~lf~~M~~~g~~Pd~~ty~~ll~a~~~~g~~~  305 (857)
T PLN03077        228 LITMYVKC--GDVVSARLVFDRMPRRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDER  305 (857)
T ss_pred             HHHHHhcC--CCHHHHHHHHhcCCCCCcchhHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChH
Confidence            46789999  9999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHcCCCCcHHHHHHHHHHHHhcCCHHHHHHHhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHhhC-----
Q 039362           81 LAVAVHAQIAKTGYESDLFISNSLIHMYGSCGDIVYAREVFDGMPTKMSVSWNSMLDGYAKCGEMNMARQVFELM-----  155 (440)
Q Consensus        81 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-----  155 (440)
                      .+.+++..+.+.|+.||..+|+.|+.+|++.|++++|.++|++|..+|..+|+.++.+|++.|++++|.++|++|     
T Consensus       306 ~a~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~~s~n~li~~~~~~g~~~~A~~lf~~M~~~g~  385 (857)
T PLN03077        306 LGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETKDAVSWTAMISGYEKNGLPDKALETYALMEQDNV  385 (857)
T ss_pred             HHHHHHHHHHHhCCccchHHHHHHHHHHHhcCCHHHHHHHHhhCCCCCeeeHHHHHHHHHhCCCHHHHHHHHHHHHHhCC
Confidence            999999999999999999999999999999999999999999998888888888888876666666666555554     


Q ss_pred             -----------------------------------------------------------------CCCchhhHHHHHHHH
Q 039362          156 -----------------------------------------------------------------PERNVVSWSALIDGY  170 (440)
Q Consensus       156 -----------------------------------------------------------------~~~~~~~~~~l~~~~  170 (440)
                                                                                       .++|..+|+.++.+|
T Consensus       386 ~Pd~~t~~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~vs~~~mi~~~  465 (857)
T PLN03077        386 SPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEKDVISWTSIIAGL  465 (857)
T ss_pred             CCCceeHHHHHHHHhccchHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHHcCCHHHHHHHHHhCCCCCeeeHHHHHHHH
Confidence                                                                             344555566666666


Q ss_pred             HhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHH
Q 039362          171 VKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEAL  250 (440)
Q Consensus       171 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  250 (440)
                      ++.|+.++|+.+|++|.. ++.||..||..++.+|++.|+++.+.+++..+.+.|+.++..++++|+.+|+++|++++|.
T Consensus       466 ~~~g~~~eA~~lf~~m~~-~~~pd~~t~~~lL~a~~~~g~l~~~~~i~~~~~~~g~~~~~~~~naLi~~y~k~G~~~~A~  544 (857)
T PLN03077        466 RLNNRCFEALIFFRQMLL-TLKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAW  544 (857)
T ss_pred             HHCCCHHHHHHHHHHHHh-CCCCCHhHHHHHHHHHhhhchHHHhHHHHHHHHHhCCCccceechHHHHHHHHcCCHHHHH
Confidence            666666666666666654 4788888888888888888888888889888888898899999999999999999999999


Q ss_pred             HHHhhhhhcCCchhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHh-hcCC
Q 039362          251 IVFHGVEKHQSDVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLG-KRGM  329 (440)
Q Consensus       251 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~-~~~~  329 (440)
                      .+|+.+   .||..+|+++|.+|++.|+.++|.++|++|.+.|+.||..||+.++.+|.+.|.+++|.++|+.|. +.|+
T Consensus       545 ~~f~~~---~~d~~s~n~lI~~~~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~v~ea~~~f~~M~~~~gi  621 (857)
T PLN03077        545 NQFNSH---EKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKYSI  621 (857)
T ss_pred             HHHHhc---CCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCcccHHHHHHHHhhcChHHHHHHHHHHHHHHhCC
Confidence            999988   789999999999999999999999999999999999999999999999999999999999999999 5599


Q ss_pred             CCCcchHHHHHHHHHhcCCHHHHHHHHhcCCCCccHhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCCchHHHHHHHH
Q 039362          330 VPKSEHYACMVDALSRAGQVTEAYEFICQMPLEPTASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVY  409 (440)
Q Consensus       330 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~  409 (440)
                      .|+..+|+.++.+|.+.|++++|.+++++|+++||..+|+.|+.+|..+|+.+.++...+++.++.|++...|..+...|
T Consensus       622 ~P~~~~y~~lv~~l~r~G~~~eA~~~~~~m~~~pd~~~~~aLl~ac~~~~~~e~~e~~a~~l~~l~p~~~~~y~ll~n~y  701 (857)
T PLN03077        622 TPNLKHYACVVDLLGRAGKLTEAYNFINKMPITPDPAVWGALLNACRIHRHVELGELAAQHIFELDPNSVGYYILLCNLY  701 (857)
T ss_pred             CCchHHHHHHHHHHHhCCCHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhhCCCCcchHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HhccChHHHHHHHHHHHhcCCccCCCCCCCC
Q 039362          410 AIFKRWDEARTTREAMETRGVKKYPGWSFVE  440 (440)
Q Consensus       410 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~  440 (440)
                      ...|+|++|.++.+.|.+.|+.+.||+||||
T Consensus       702 a~~g~~~~a~~vr~~M~~~g~~k~~g~s~ie  732 (857)
T PLN03077        702 ADAGKWDEVARVRKTMRENGLTVDPGCSWVE  732 (857)
T ss_pred             HHCCChHHHHHHHHHHHHcCCCCCCCccEEE
Confidence            9999999999999999999999999999997

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

Probab=100.00  E-value=1.4e-68  Score=510.98  Aligned_cols=431  Identities=27%  Similarity=0.487  Sum_probs=399.9

Q ss_pred             cccccccccCChhhHHHHhhhcC-----CCChHHHHHHHHHHHccCChhhHHHHHHHHHHcCCCCCcchHHHHHHHhhch
Q 039362            2 LSFSALSYLGNIDYSCKVLSHLS-----NPRIFYWNTVIRGYSKSKNPNKSISLFVKMLRAGVSPDHLTYPFLAKASGRL   76 (440)
Q Consensus         2 ~~~y~~~~~g~~~~A~~~~~~~~-----~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~   76 (440)
                      |..|.+.  |++++|.++|+.+.     .||..+|+.++.++.+.++++.+..++..|.+.|+.||..+|+.++..|++.
T Consensus        94 i~~l~~~--g~~~~Al~~f~~m~~~~~~~~~~~t~~~ll~a~~~~~~~~~a~~l~~~m~~~g~~~~~~~~n~Li~~y~k~  171 (697)
T PLN03081         94 IEKLVAC--GRHREALELFEILEAGCPFTLPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRVLLMHVKC  171 (697)
T ss_pred             HHHHHcC--CCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCcchHHHHHHHHHHhcC
Confidence            3445666  88888888888774     4678888888888888888888888888888888888888888888888888


Q ss_pred             hcHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhcCCHHHHHHHhhCCC-------------------------------
Q 039362           77 AKRELAVAVHAQIAKTGYESDLFISNSLIHMYGSCGDIVYAREVFDGMP-------------------------------  125 (440)
Q Consensus        77 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~-------------------------------  125 (440)
                      |+++.|.++|++|.    .||..+|+.++.+|++.|++++|.++|++|.                               
T Consensus       172 g~~~~A~~lf~~m~----~~~~~t~n~li~~~~~~g~~~~A~~lf~~M~~~g~~p~~~t~~~ll~a~~~~~~~~~~~~l~  247 (697)
T PLN03081        172 GMLIDARRLFDEMP----ERNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLH  247 (697)
T ss_pred             CCHHHHHHHHhcCC----CCCeeeHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHhcCCcHHHHHHHH
Confidence            88888888888773    4677888888888888888888888887773                               


Q ss_pred             --------CCchhhHHHHHHHHHhcCChHHHHHHHhhCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHH
Q 039362          126 --------TKMSVSWNSMLDGYAKCGEMNMARQVFELMPERNVVSWSALIDGYVKCGDYKEALVIFEEMRDVGSKANEVT  197 (440)
Q Consensus       126 --------~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  197 (440)
                              .+|..+|+.|+.+|++.|++++|.++|+.|.++|..+||.++.+|++.|++++|+++|++|.+.|+.||..|
T Consensus       248 ~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~~~vt~n~li~~y~~~g~~~eA~~lf~~M~~~g~~pd~~t  327 (697)
T PLN03081        248 CCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPEKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFT  327 (697)
T ss_pred             HHHHHhCCCccceeHHHHHHHHHHCCCHHHHHHHHHhCCCCChhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHH
Confidence                    235567889999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCCchhhHHHHHHHHHhcC
Q 039362          198 LVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQSDVLIWNAMIGGLAMHG  277 (440)
Q Consensus       198 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~  277 (440)
                      |+.++.+|++.|++++|.+++..|.+.|++|+..+++.|+.+|++.|++++|.++|++|.  .||..+||.||.+|++.|
T Consensus       328 ~~~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~--~~d~~t~n~lI~~y~~~G  405 (697)
T PLN03081        328 FSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMP--RKNLISWNALIAGYGNHG  405 (697)
T ss_pred             HHHHHHHHHhccchHHHHHHHHHHHHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCC--CCCeeeHHHHHHHHHHcC
Confidence            999999999999999999999999999999999999999999999999999999999998  799999999999999999


Q ss_pred             ChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHhhc-CCCCCcchHHHHHHHHHhcCCHHHHHHHH
Q 039362          278 FVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKR-GMVPKSEHYACMVDALSRAGQVTEAYEFI  356 (440)
Q Consensus       278 ~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  356 (440)
                      +.++|.++|++|.+.|+.||..||+.++.+|.+.|..++|.++|+.|.+. |+.|+..+|+.++..|++.|++++|.+++
T Consensus       406 ~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g~~p~~~~y~~li~~l~r~G~~~eA~~~~  485 (697)
T PLN03081        406 RGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEAYAMI  485 (697)
T ss_pred             CHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCccchHhHHHHHHhcCCHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999875 99999999999999999999999999999


Q ss_pred             hcCCCCccHhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCCchHHHHHHHHHhccChHHHHHHHHHHHhcCCccCCCC
Q 039362          357 CQMPLEPTASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEARTTREAMETRGVKKYPGW  436 (440)
Q Consensus       357 ~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~  436 (440)
                      ++|+..|+..+|+.++.+|...|+.+.|..+++++.+.+|.+..+|..++.+|.+.|++++|.+++++|.+.|+.+.||+
T Consensus       486 ~~~~~~p~~~~~~~Ll~a~~~~g~~~~a~~~~~~l~~~~p~~~~~y~~L~~~y~~~G~~~~A~~v~~~m~~~g~~k~~g~  565 (697)
T PLN03081        486 RRAPFKPTVNMWAALLTACRIHKNLELGRLAAEKLYGMGPEKLNNYVVLLNLYNSSGRQAEAAKVVETLKRKGLSMHPAC  565 (697)
T ss_pred             HHCCCCCCHHHHHHHHHHHHHcCCcHHHHHHHHHHhCCCCCCCcchHHHHHHHHhCCCHHHHHHHHHHHHHcCCccCCCe
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCC
Q 039362          437 SFVE  440 (440)
Q Consensus       437 ~~~~  440 (440)
                      ||||
T Consensus       566 s~i~  569 (697)
T PLN03081        566 TWIE  569 (697)
T ss_pred             eEEE
Confidence            9986

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=1.1e-63  Score=488.42  Aligned_cols=427  Identities=31%  Similarity=0.515  Sum_probs=393.3

Q ss_pred             CcccccccccCChhhHHHHhhhcCCCChHHHHHHHHHHHccCChhhHHHHHHHHHHcCCCCCcchHHHHHHHhhchhcHH
Q 039362            1 MLSFSALSYLGNIDYSCKVLSHLSNPRIFYWNTVIRGYSKSKNPNKSISLFVKMLRAGVSPDHLTYPFLAKASGRLAKRE   80 (440)
Q Consensus         1 l~~~y~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~   80 (440)
                      |+.+|+++  |+++.|.++|++|++||+.+||.+|.+|++.|++++|+++|++|...|+.||..||+.++.+|+..++++
T Consensus       127 li~~~~~~--g~~~~A~~~f~~m~~~d~~~~n~li~~~~~~g~~~~A~~~f~~M~~~g~~Pd~~t~~~ll~~~~~~~~~~  204 (857)
T PLN03077        127 MLSMFVRF--GELVHAWYVFGKMPERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLA  204 (857)
T ss_pred             HHHHHHhC--CChHHHHHHHhcCCCCCeeEHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHhCCccchh
Confidence            46778899  9999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHcCCCCcHHHHHHHHHHHHhcCCHHHHHHHhhCCCCCchhhHHHHHHHH---------------------
Q 039362           81 LAVAVHAQIAKTGYESDLFISNSLIHMYGSCGDIVYAREVFDGMPTKMSVSWNSMLDGY---------------------  139 (440)
Q Consensus        81 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~---------------------  139 (440)
                      .+.+++..+.+.|+.||..+++.|+.+|++.|+++.|.++|++|..+|..+|++++.+|                     
T Consensus       205 ~~~~~~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~lf~~m~~~d~~s~n~li~~~~~~g~~~eAl~lf~~M~~~g~  284 (857)
T PLN03077        205 RGREVHAHVVRFGFELDVDVVNALITMYVKCGDVVSARLVFDRMPRRDCISWNAMISGYFENGECLEGLELFFTMRELSV  284 (857)
T ss_pred             hHHHHHHHHHHcCCCcccchHhHHHHHHhcCCCHHHHHHHHhcCCCCCcchhHHHHHHHHhCCCHHHHHHHHHHHHHcCC
Confidence            99999999999999999999999999999999999999999988877666666666655                     


Q ss_pred             -------------------------------------------------HhcCChHHHHHHHhhCCCCchhhHHHHHHHH
Q 039362          140 -------------------------------------------------AKCGEMNMARQVFELMPERNVVSWSALIDGY  170 (440)
Q Consensus       140 -------------------------------------------------~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~  170 (440)
                                                                       ++.|++++|.++|+.|..||..+|+.++.+|
T Consensus       285 ~Pd~~ty~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~~s~n~li~~~  364 (857)
T PLN03077        285 DPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETKDAVSWTAMISGY  364 (857)
T ss_pred             CCChhHHHHHHHHHHhcCChHHHHHHHHHHHHhCCccchHHHHHHHHHHHhcCCHHHHHHHHhhCCCCCeeeHHHHHHHH
Confidence                                                             4566666666777777778888999999999


Q ss_pred             HhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHH
Q 039362          171 VKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEAL  250 (440)
Q Consensus       171 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  250 (440)
                      .+.|++++|+++|++|.+.|+.||..||+.++.+|++.|+++.|.++++.+.+.|+.++..+++.|+.+|++.|++++|.
T Consensus       365 ~~~g~~~~A~~lf~~M~~~g~~Pd~~t~~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~  444 (857)
T PLN03077        365 EKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKAL  444 (857)
T ss_pred             HhCCCHHHHHHHHHHHHHhCCCCCceeHHHHHHHHhccchHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHHcCCHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHhhhhhcCCchhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHhhcCCC
Q 039362          251 IVFHGVEKHQSDVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKRGMV  330 (440)
Q Consensus       251 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  330 (440)
                      ++|++|.  .+|..+|+.+|.+|++.|+.++|..+|++|.. ++.||..||+.++.+|++.|+.+.+.+++..+.+.|+.
T Consensus       445 ~vf~~m~--~~d~vs~~~mi~~~~~~g~~~eA~~lf~~m~~-~~~pd~~t~~~lL~a~~~~g~l~~~~~i~~~~~~~g~~  521 (857)
T PLN03077        445 EVFHNIP--EKDVISWTSIIAGLRLNNRCFEALIFFRQMLL-TLKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIG  521 (857)
T ss_pred             HHHHhCC--CCCeeeHHHHHHHHHHCCCHHHHHHHHHHHHh-CCCCCHhHHHHHHHHHhhhchHHHhHHHHHHHHHhCCC
Confidence            9999998  78999999999999999999999999999986 58999999999999999999999999999999999999


Q ss_pred             CCcchHHHHHHHHHhcCCHHHHHHHHhcCCCCccHhHHHHHHHHHHhcCChhHHHHHHHHHHhcC-CCCCchHHHHHHHH
Q 039362          331 PKSEHYACMVDALSRAGQVTEAYEFICQMPLEPTASMLGSLLTGCMNHGKLDLAEIVGKKLVELQ-PDHDGRYVGLSNVY  409 (440)
Q Consensus       331 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~-~~~~~~~~~l~~~~  409 (440)
                      ++..+++.|+..|.++|++++|.++|+++  .||..+|+.++.+|++.|+.++|.++|++|.+.+ .++..+|..++.+|
T Consensus       522 ~~~~~~naLi~~y~k~G~~~~A~~~f~~~--~~d~~s~n~lI~~~~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~  599 (857)
T PLN03077        522 FDGFLPNALLDLYVRCGRMNYAWNQFNSH--EKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCAC  599 (857)
T ss_pred             ccceechHHHHHHHHcCCHHHHHHHHHhc--CCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCcccHHHHHHHH
Confidence            99999999999999999999999999998  7899999999999999999999999999999877 56777899999999


Q ss_pred             HhccChHHHHHHHHHHH-hcCCccCC
Q 039362          410 AIFKRWDEARTTREAME-TRGVKKYP  434 (440)
Q Consensus       410 ~~~g~~~~A~~~~~~~~-~~~~~~~~  434 (440)
                      .+.|++++|.++|++|. +.|+.|+.
T Consensus       600 ~~~g~v~ea~~~f~~M~~~~gi~P~~  625 (857)
T PLN03077        600 SRSGMVTQGLEYFHSMEEKYSITPNL  625 (857)
T ss_pred             hhcChHHHHHHHHHHHHHHhCCCCch
Confidence            99999999999999998 56776653

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=9.6e-63  Score=473.47  Aligned_cols=362  Identities=16%  Similarity=0.307  Sum_probs=171.8

Q ss_pred             CChhhHHHHhhhcCCCChHHHHHHHHHHHccCChhhHHHHHHHHHHcCCCCCcchHHHHHHHhhchhcHHHHHHHHHHHH
Q 039362           11 GNIDYSCKVLSHLSNPRIFYWNTVIRGYSKSKNPNKSISLFVKMLRAGVSPDHLTYPFLAKASGRLAKRELAVAVHAQIA   90 (440)
Q Consensus        11 g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~   90 (440)
                      |.+++|.++|+.|..||..+|+.++.+|++.|+++.|.++|+.|.+.|+.||..+|+.+|.+|++.|+++.|.++|++|.
T Consensus       420 g~~~eAl~lf~~M~~pd~~Tyn~LL~a~~k~g~~e~A~~lf~~M~~~Gl~pD~~tynsLI~~y~k~G~vd~A~~vf~eM~  499 (1060)
T PLN03218        420 RAVKEAFRFAKLIRNPTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMV  499 (1060)
T ss_pred             CCHHHHHHHHHHcCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHH
Confidence            44444444444444444444444444444444444444444444444444444444444444444444444444444444


Q ss_pred             HcCCCCcHHHHHHHHHHHHhcCCHHHHHHHhhCCC----CCchhhHHHHHHHHHhcCChHHHHHHHhhCC------CCch
Q 039362           91 KTGYESDLFISNSLIHMYGSCGDIVYAREVFDGMP----TKMSVSWNSMLDGYAKCGEMNMARQVFELMP------ERNV  160 (440)
Q Consensus        91 ~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~----~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~------~~~~  160 (440)
                      +.|+.||..+|+.+|.+|++.|++++|.++|+.|.    .||..+|+.++.+|++.|++++|.++|++|.      .||.
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            44444444444444444444444444444444442    2344444444444444444444444444442      1344


Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHH
Q 039362          161 VSWSALIDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMY  240 (440)
Q Consensus       161 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  240 (440)
                      .+|+.++.+|++.|++++|.++|+.|.+.|+.|+..+|+.++.+|++.|++++|.++|++|.+.|+.||..+|+.++.+|
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             HhcCCHHHHHHHHhhhhhc--CCchhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHH
Q 039362          241 AKCGAIKEALIVFHGVEKH--QSDVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAW  318 (440)
Q Consensus       241 ~~~g~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~  318 (440)
                      ++.|++++|.++|+.|.+.  .|+..+|+.+|.+|++.|++++|.++|++|...|+.||..+|+.++.+|++.|++++|.
T Consensus       660 ~k~G~~eeA~~l~~eM~k~G~~pd~~tynsLI~ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G~~eeAl  739 (1060)
T PLN03218        660 GHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKAL  739 (1060)
T ss_pred             HhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHH
Confidence            4444444444444444432  34444444444444444444444444444444444444444444444444444444444


Q ss_pred             HHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcC---CCCccHhHHHHHH
Q 039362          319 YFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQM---PLEPTASMLGSLL  372 (440)
Q Consensus       319 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~---~~~p~~~~~~~l~  372 (440)
                      ++|++|.+.|+.||..+|+.++.+|.+.|++++|.+++++|   ++.||..+|+.++
T Consensus       740 elf~eM~~~Gi~Pd~~Ty~sLL~a~~k~G~le~A~~l~~~M~k~Gi~pd~~tynsLI  796 (1060)
T PLN03218        740 EVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLSQAKEDGIKPNLVMCRCIT  796 (1060)
T ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHH
Confidence            44444444444444444444444444444444444444444   3444444444443

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=1.4e-62  Score=472.41  Aligned_cols=424  Identities=17%  Similarity=0.250  Sum_probs=397.7

Q ss_pred             ccccccCChhhHHHHhhhcCC-----CChHHHHHHHHHHHccCChhhHHHHHHHHHHcCCCCCcchHHHHHHHhhchhcH
Q 039362            5 SALSYLGNIDYSCKVLSHLSN-----PRIFYWNTVIRGYSKSKNPNKSISLFVKMLRAGVSPDHLTYPFLAKASGRLAKR   79 (440)
Q Consensus         5 y~~~~~g~~~~A~~~~~~~~~-----~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~   79 (440)
                      ++++  |++++|.++|+.|+.     ++...++.++..|.+.|.++.|..+|+.|..    ||..+|+.++.+|++.|++
T Consensus       380 l~r~--G~l~eAl~Lfd~M~~~gvv~~~~v~~~~li~~~~~~g~~~eAl~lf~~M~~----pd~~Tyn~LL~a~~k~g~~  453 (1060)
T PLN03218        380 LLRD--GRIKDCIDLLEDMEKRGLLDMDKIYHAKFFKACKKQRAVKEAFRFAKLIRN----PTLSTFNMLMSVCASSQDI  453 (1060)
T ss_pred             HHHC--cCHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHCCCHHHHHHHHHHcCC----CCHHHHHHHHHHHHhCcCH
Confidence            4455  999999999999974     4566788889999999999999999999864    9999999999999999999


Q ss_pred             HHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhcCCHHHHHHHhhCCC----CCchhhHHHHHHHHHhcCChHHHHHHHhhC
Q 039362           80 ELAVAVHAQIAKTGYESDLFISNSLIHMYGSCGDIVYAREVFDGMP----TKMSVSWNSMLDGYAKCGEMNMARQVFELM  155 (440)
Q Consensus        80 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~----~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  155 (440)
                      +.|.++|+.|.+.|+.||..+|+.+|.+|++.|+++.|.++|++|.    .||..+|+.++.+|++.|++++|.++|+.|
T Consensus       454 e~A~~lf~~M~~~Gl~pD~~tynsLI~~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaLI~gy~k~G~~eeAl~lf~~M  533 (1060)
T PLN03218        454 DGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIM  533 (1060)
T ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999999999998    479999999999999999999999999999


Q ss_pred             CC----CchhhHHHHHHHHHhcCCHHHHHHHHHHHHh--cCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCc
Q 039362          156 PE----RNVVSWSALIDGYVKCGDYKEALVIFEEMRD--VGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLT  229 (440)
Q Consensus       156 ~~----~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  229 (440)
                      .+    ||..+|+.++.+|++.|++++|.++|++|..  .|+.||..+|+.++.+|++.|++++|.++|+.|.+.+++|+
T Consensus       534 ~~~Gv~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~G~ldeA~elf~~M~e~gi~p~  613 (1060)
T PLN03218        534 RSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGT  613 (1060)
T ss_pred             HHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCC
Confidence            64    8999999999999999999999999999976  67899999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHhhhhhc--CCchhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHH
Q 039362          230 LPLQTSLIDMYAKCGAIKEALIVFHGVEKH--QSDVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSA  307 (440)
Q Consensus       230 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~  307 (440)
                      ..+|+.++.+|++.|++++|.++|++|.+.  .||..+|+.++.+|++.|++++|.+++++|.+.|+.||..+|+.++.+
T Consensus       614 ~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA~~l~~eM~k~G~~pd~~tynsLI~a  693 (1060)
T PLN03218        614 PEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGA  693 (1060)
T ss_pred             hHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Confidence            999999999999999999999999999876  789999999999999999999999999999999999999999999999


Q ss_pred             HHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcC---CCCccHhHHHHHHHHHHhcCChhHH
Q 039362          308 CAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQM---PLEPTASMLGSLLTGCMNHGKLDLA  384 (440)
Q Consensus       308 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~---~~~p~~~~~~~l~~~~~~~g~~~~a  384 (440)
                      |++.|++++|.++|++|.+.|+.||..+|+.+|.+|++.|++++|.++|++|   ++.||..+|+.++.+|.+.|++++|
T Consensus       694 y~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~~Gi~Pd~~Ty~sLL~a~~k~G~le~A  773 (1060)
T PLN03218        694 CSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVG  773 (1060)
T ss_pred             HHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHH
Confidence            9999999999999999999999999999999999999999999999999998   7899999999999999999999999


Q ss_pred             HHHHHHHHhcC-CCCCchHHHHHHHHHh----c-------------------cChHHHHHHHHHHHhcCCccCC
Q 039362          385 EIVGKKLVELQ-PDHDGRYVGLSNVYAI----F-------------------KRWDEARTTREAMETRGVKKYP  434 (440)
Q Consensus       385 ~~~~~~~~~~~-~~~~~~~~~l~~~~~~----~-------------------g~~~~A~~~~~~~~~~~~~~~~  434 (440)
                      .+++++|.+.+ .++..+|+.++..|.+    +                   +..++|..+|++|++.|+.|+.
T Consensus       774 ~~l~~~M~k~Gi~pd~~tynsLIglc~~~y~ka~~l~~~v~~f~~g~~~~~n~w~~~Al~lf~eM~~~Gi~Pd~  847 (1060)
T PLN03218        774 LDLLSQAKEDGIKPNLVMCRCITGLCLRRFEKACALGEPVVSFDSGRPQIENKWTSWALMVYRETISAGTLPTM  847 (1060)
T ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHhhhhhhhhhhhccccccccchHHHHHHHHHHHHHCCCCCCH
Confidence            99999999988 5566688888765432    1                   2346799999999999998764

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

Probab=100.00  E-value=7e-58  Score=437.34  Aligned_cols=426  Identities=21%  Similarity=0.309  Sum_probs=388.4

Q ss_pred             CcccccccccCChhhHHHHhhhcCCCChHHHHHHHHHHHccCChhhHHHHHHHHHHcCCCCCcchHHHHHHHhhchhcHH
Q 039362            1 MLSFSALSYLGNIDYSCKVLSHLSNPRIFYWNTVIRGYSKSKNPNKSISLFVKMLRAGVSPDHLTYPFLAKASGRLAKRE   80 (440)
Q Consensus         1 l~~~y~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~   80 (440)
                      |+.+|+++  |++++|.++|++|+.||..+||.++.+|++.|++++|+++|++|.+.|+.|+..+|..++.+|++.|..+
T Consensus       164 Li~~y~k~--g~~~~A~~lf~~m~~~~~~t~n~li~~~~~~g~~~~A~~lf~~M~~~g~~p~~~t~~~ll~a~~~~~~~~  241 (697)
T PLN03081        164 VLLMHVKC--GMLIDARRLFDEMPERNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSAR  241 (697)
T ss_pred             HHHHHhcC--CCHHHHHHHHhcCCCCCeeeHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHhcCCcHH
Confidence            46789999  9999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHcCCCCcHHHHHHHHHHHHhcCCHHHHHHHhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHhhCC----
Q 039362           81 LAVAVHAQIAKTGYESDLFISNSLIHMYGSCGDIVYAREVFDGMPTKMSVSWNSMLDGYAKCGEMNMARQVFELMP----  156 (440)
Q Consensus        81 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~----  156 (440)
                      .+.+++..+.+.|+.||..+++.|+.+|++.|++++|.++|++|.++|.++|+.++.+|++.|++++|.++|++|.    
T Consensus       242 ~~~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~~~vt~n~li~~y~~~g~~~eA~~lf~~M~~~g~  321 (697)
T PLN03081        242 AGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPEKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGV  321 (697)
T ss_pred             HHHHHHHHHHHhCCCccceeHHHHHHHHHHCCCHHHHHHHHHhCCCCChhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCC
Confidence            9999999999999999999999999999999999999999999999999999999999999999999999999995    


Q ss_pred             CCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHH
Q 039362          157 ERNVVSWSALIDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSL  236 (440)
Q Consensus       157 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  236 (440)
                      .||..+|+.++.+|++.|++++|.+++..|.+.|+.||..+++.++.+|++.|++++|.++|++|.    .+|..+|+.+
T Consensus       322 ~pd~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~----~~d~~t~n~l  397 (697)
T PLN03081        322 SIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMP----RKNLISWNAL  397 (697)
T ss_pred             CCCHHHHHHHHHHHHhccchHHHHHHHHHHHHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCC----CCCeeeHHHH
Confidence            489999999999999999999999999999999999999999999999999999999999999986    4788999999


Q ss_pred             HHHHHhcCCHHHHHHHHhhhhhc--CCchhhHHHHHHHHHhcCChHHHHHHHHHHHH-cCCCccHhhHHHHHHHHHcCCC
Q 039362          237 IDMYAKCGAIKEALIVFHGVEKH--QSDVLIWNAMIGGLAMHGFVKESLELFTEMQI-VGITPDEITFLGLLSACAHGGL  313 (440)
Q Consensus       237 ~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~-~~~~p~~~~~~~l~~~~~~~~~  313 (440)
                      +.+|++.|+.++|.++|++|.+.  .||..+|+.++.+|.+.|..++|.++|+.|.+ .|+.|+..+|+.++.++++.|+
T Consensus       398 I~~y~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g~~p~~~~y~~li~~l~r~G~  477 (697)
T PLN03081        398 IAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGL  477 (697)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCccchHhHHHHHHhcCC
Confidence            99999999999999999999864  79999999999999999999999999999976 6999999999999999999999


Q ss_pred             hHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcC-CCCcc-HhHHHHHHHHHHhcCChhHHHHHHHHH
Q 039362          314 VMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQM-PLEPT-ASMLGSLLTGCMNHGKLDLAEIVGKKL  391 (440)
Q Consensus       314 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~  391 (440)
                      +++|.++++++   ++.|+..+|+.++.+|...|+++.|..+++++ +..|+ ..+|..++..|++.|++++|.++++.|
T Consensus       478 ~~eA~~~~~~~---~~~p~~~~~~~Ll~a~~~~g~~~~a~~~~~~l~~~~p~~~~~y~~L~~~y~~~G~~~~A~~v~~~m  554 (697)
T PLN03081        478 LDEAYAMIRRA---PFKPTVNMWAALLTACRIHKNLELGRLAAEKLYGMGPEKLNNYVVLLNLYNSSGRQAEAAKVVETL  554 (697)
T ss_pred             HHHHHHHHHHC---CCCCCHHHHHHHHHHHHHcCCcHHHHHHHHHHhCCCCCCCcchHHHHHHHHhCCCHHHHHHHHHHH
Confidence            99999998765   56899999999999999999999999999988 77775 579999999999999999999999999


Q ss_pred             HhcC-C-CCCchHHHHHHH---H--------HhccChHHHHHHHHHHHhcCCccCCC
Q 039362          392 VELQ-P-DHDGRYVGLSNV---Y--------AIFKRWDEARTTREAMETRGVKKYPG  435 (440)
Q Consensus       392 ~~~~-~-~~~~~~~~l~~~---~--------~~~g~~~~A~~~~~~~~~~~~~~~~~  435 (440)
                      .+.+ . .+...|..+...   +        ....-++...++.++|.+.|..++..
T Consensus       555 ~~~g~~k~~g~s~i~~~~~~~~f~~~d~~h~~~~~i~~~l~~l~~~~~~~gy~~~~~  611 (697)
T PLN03081        555 KRKGLSMHPACTWIEVKKQDHSFFSGDRLHPQSREIYQKLDELMKEISEYGYVAEEN  611 (697)
T ss_pred             HHcCCccCCCeeEEEECCeEEEEccCCCCCccHHHHHHHHHHHHHHHHHcCCCCCcc
Confidence            9987 2 222222211100   0        00112455667788888888766543

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

Probab=100.00  E-value=7.1e-32  Score=270.29  Aligned_cols=416  Identities=13%  Similarity=0.057  Sum_probs=248.4

Q ss_pred             cccccccCChhhHHHHhhhcC---CCChHHHHHHHHHHHccCChhhHHHHHHHHHHcCCCCCcchHHHHHHHhhchhcHH
Q 039362            4 FSALSYLGNIDYSCKVLSHLS---NPRIFYWNTVIRGYSKSKNPNKSISLFVKMLRAGVSPDHLTYPFLAKASGRLAKRE   80 (440)
Q Consensus         4 ~y~~~~~g~~~~A~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~   80 (440)
                      .|...  |++++|.++++.+.   +++..+|..+...+...|++++|...|+++.+.. +.+...+..+...+...|+++
T Consensus       440 ~~~~~--~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~  516 (899)
T TIGR02917       440 SYLRS--GQFDKALAAAKKLEKKQPDNASLHNLLGAIYLGKGDLAKAREAFEKALSIE-PDFFPAAANLARIDIQEGNPD  516 (899)
T ss_pred             HHHhc--CCHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHhCCCHHHHHHHHHHHHhhC-CCcHHHHHHHHHHHHHCCCHH
Confidence            34455  88888888877664   4556677777888888888888888888777642 234455666777777777777


Q ss_pred             HHHHHHHHHHHcCCCCcHHHHHHHHHHHHhcCCHHHHHHHhhCCCC---CchhhHHHHHHHHHhcCChHHHHHHHhhCCC
Q 039362           81 LAVAVHAQIAKTGYESDLFISNSLIHMYGSCGDIVYAREVFDGMPT---KMSVSWNSMLDGYAKCGEMNMARQVFELMPE  157 (440)
Q Consensus        81 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  157 (440)
                      +|.+.++.+.+.++ .+..++..+...+.+.|+.++|...++++..   .+...+..++..+...|++++|..+++.+.+
T Consensus       517 ~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~  595 (899)
T TIGR02917       517 DAIQRFEKVLTIDP-KNLRAILALAGLYLRTGNEEEAVAWLEKAAELNPQEIEPALALAQYYLGKGQLKKALAILNEAAD  595 (899)
T ss_pred             HHHHHHHHHHHhCc-CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCccchhHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            77777777776643 3566677777777777777777777766543   2334555666666667777777766666543


Q ss_pred             ---CchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHH
Q 039362          158 ---RNVVSWSALIDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQT  234 (440)
Q Consensus       158 ---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  234 (440)
                         .+...|..+..++...|++++|...|+++.+.. +.+...+..+..++...|++++|...++.+.+.. +.+...+.
T Consensus       596 ~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~  673 (899)
T TIGR02917       596 AAPDSPEAWLMLGRAQLAAGDLNKAVSSFKKLLALQ-PDSALALLLLADAYAVMKNYAKAITSLKRALELK-PDNTEAQI  673 (899)
T ss_pred             cCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHH
Confidence               345566666666666666666666666665543 3344555566666666666666666666666554 44455555


Q ss_pred             HHHHHHHhcCCHHHHHHHHhhhhhcCC-chhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCC
Q 039362          235 SLIDMYAKCGAIKEALIVFHGVEKHQS-DVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGL  313 (440)
Q Consensus       235 ~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~  313 (440)
                      .++..+...|++++|..+++.+.+..| +...+..+...+...|++++|...|+.+...+  |+..++..+..++.+.|+
T Consensus       674 ~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~l~~~~~~~g~  751 (899)
T TIGR02917       674 GLAQLLLAAKRTESAKKIAKSLQKQHPKAALGFELEGDLYLRQKDYPAAIQAYRKALKRA--PSSQNAIKLHRALLASGN  751 (899)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhhCcCChHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC--CCchHHHHHHHHHHHCCC
Confidence            666666666666666666666554433 34445555555556666666666666555442  333444455555555555


Q ss_pred             hHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcC-CCC-ccHhHHHHHHHHHHhcCChhHHHHHHHHH
Q 039362          314 VMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQM-PLE-PTASMLGSLLTGCMNHGKLDLAEIVGKKL  391 (440)
Q Consensus       314 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~-p~~~~~~~l~~~~~~~g~~~~a~~~~~~~  391 (440)
                      +++|...++.+.+.. +.+...+..+...|...|++++|.+.|+++ ... ++..++..++..+...|+ ++|+..++++
T Consensus       752 ~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~-~~A~~~~~~~  829 (899)
T TIGR02917       752 TAEAVKTLEAWLKTH-PNDAVLRTALAELYLAQKDYDKAIKHYRTVVKKAPDNAVVLNNLAWLYLELKD-PRALEYAEKA  829 (899)
T ss_pred             HHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCc-HHHHHHHHHH
Confidence            555555555555532 223444555555555555555555555554 222 233444555555555555 4455555555


Q ss_pred             HhcCCCCCchHHHHHHHHHhccChHHHHHHHHHHHhcC
Q 039362          392 VELQPDHDGRYVGLSNVYAIFKRWDEARTTREAMETRG  429 (440)
Q Consensus       392 ~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  429 (440)
                      .+..|.++..+..++.++...|++++|.++++++++.+
T Consensus       830 ~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~  867 (899)
T TIGR02917       830 LKLAPNIPAILDTLGWLLVEKGEADRALPLLRKAVNIA  867 (899)
T ss_pred             HhhCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence            55555555555555555555555555555555555443

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=100.00  E-value=4.2e-31  Score=264.73  Aligned_cols=413  Identities=14%  Similarity=0.103  Sum_probs=315.4

Q ss_pred             ccccccCChhhHHHHhhhcC---CCChHHHHHHHHHHHccCChhhHHHHHHHHHHcCCCCCcchHHHHHHHhhchhcHHH
Q 039362            5 SALSYLGNIDYSCKVLSHLS---NPRIFYWNTVIRGYSKSKNPNKSISLFVKMLRAGVSPDHLTYPFLAKASGRLAKREL   81 (440)
Q Consensus         5 y~~~~~g~~~~A~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~   81 (440)
                      |...  |++++|.+.|+++.   +.+...+..+...+...|++++|...|+++.+.+ +.+..++..+...+.+.|+.++
T Consensus       475 ~~~~--~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~  551 (899)
T TIGR02917       475 YLGK--GDLAKAREAFEKALSIEPDFFPAAANLARIDIQEGNPDDAIQRFEKVLTID-PKNLRAILALAGLYLRTGNEEE  551 (899)
T ss_pred             HHhC--CCHHHHHHHHHHHHhhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cCcHHHHHHHHHHHHHcCCHHH
Confidence            4444  88888888887653   4556677777788888888888888888887653 3456677777788888888888


Q ss_pred             HHHHHHHHHHcCCCCcHHHHHHHHHHHHhcCCHHHHHHHhhCCCC---CchhhHHHHHHHHHhcCChHHHHHHHhhCCC-
Q 039362           82 AVAVHAQIAKTGYESDLFISNSLIHMYGSCGDIVYAREVFDGMPT---KMSVSWNSMLDGYAKCGEMNMARQVFELMPE-  157 (440)
Q Consensus        82 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-  157 (440)
                      |..+++++.+.++ .+...+..++..+...|++++|..+++.+.+   .+...|..+..++...|++++|...|+.+.+ 
T Consensus       552 A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  630 (899)
T TIGR02917       552 AVAWLEKAAELNP-QEIEPALALAQYYLGKGQLKKALAILNEAADAAPDSPEAWLMLGRAQLAAGDLNKAVSSFKKLLAL  630 (899)
T ss_pred             HHHHHHHHHHhCc-cchhHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            8888888877653 3566677788888888888888888877653   3556778888888888888888888887654 


Q ss_pred             --CchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHH
Q 039362          158 --RNVVSWSALIDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTS  235 (440)
Q Consensus       158 --~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  235 (440)
                        .+...+..+...+...|++++|...++++.+.. +.+..++..++..+...|++++|..+++.+.+.. +.+...+..
T Consensus       631 ~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~  708 (899)
T TIGR02917       631 QPDSALALLLLADAYAVMKNYAKAITSLKRALELK-PDNTEAQIGLAQLLLAAKRTESAKKIAKSLQKQH-PKAALGFEL  708 (899)
T ss_pred             CCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cCChHHHHH
Confidence              345667777888888888888888888877653 4456777777888888888888888888887765 566677777


Q ss_pred             HHHHHHhcCCHHHHHHHHhhhhhcCCchhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChH
Q 039362          236 LIDMYAKCGAIKEALIVFHGVEKHQSDVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVM  315 (440)
Q Consensus       236 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~  315 (440)
                      +...+...|++++|...|+.+....|+..++..++..+.+.|++++|.+.++++.+.. +.+...+..+...|...|+++
T Consensus       709 ~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~  787 (899)
T TIGR02917       709 EGDLYLRQKDYPAAIQAYRKALKRAPSSQNAIKLHRALLASGNTAEAVKTLEAWLKTH-PNDAVLRTALAELYLAQKDYD  787 (899)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHhhCCCchHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCcCHH
Confidence            8888888888888888888887777766777777888888888888888888877654 556667777777888888888


Q ss_pred             HHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcC-CCCc-cHhHHHHHHHHHHhcCChhHHHHHHHHHHh
Q 039362          316 EAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQM-PLEP-TASMLGSLLTGCMNHGKLDLAEIVGKKLVE  393 (440)
Q Consensus       316 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  393 (440)
                      +|...|+++.+.. +++..++..++..+...|+ ++|+..++++ ...| +..++..+...+...|++++|.++++++++
T Consensus       788 ~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~-~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~  865 (899)
T TIGR02917       788 KAIKHYRTVVKKA-PDNAVVLNNLAWLYLELKD-PRALEYAEKALKLAPNIPAILDTLGWLLVEKGEADRALPLLRKAVN  865 (899)
T ss_pred             HHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCc-HHHHHHHHHHHhhCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            8888888887754 3456677778888888888 7788888876 4444 345666777778888888888888888888


Q ss_pred             cCCCCCchHHHHHHHHHhccChHHHHHHHHHHH
Q 039362          394 LQPDHDGRYVGLSNVYAIFKRWDEARTTREAME  426 (440)
Q Consensus       394 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  426 (440)
                      .+|.++.++..++.++.+.|++++|.+++++|+
T Consensus       866 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  898 (899)
T TIGR02917       866 IAPEAAAIRYHLALALLATGRKAEARKELDKLL  898 (899)
T ss_pred             hCCCChHHHHHHHHHHHHcCCHHHHHHHHHHHh
Confidence            888888888888888888888888888888775

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.

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.95  E-value=8.5e-24  Score=212.84  Aligned_cols=406  Identities=11%  Similarity=0.029  Sum_probs=324.2

Q ss_pred             cCChhhHHHHhhhcC---CCChHHHHHHHHHHHccCChhhHHHHHHHHHHcCCCCCcc---hHH------------HHHH
Q 039362           10 LGNIDYSCKVLSHLS---NPRIFYWNTVIRGYSKSKNPNKSISLFVKMLRAGVSPDHL---TYP------------FLAK   71 (440)
Q Consensus        10 ~g~~~~A~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~---~~~------------~l~~   71 (440)
                      .|++++|+..|++..   +.+..++..+...+.+.|++++|+..|++..+..  |+..   .+.            ....
T Consensus       282 ~g~~~~A~~~l~~aL~~~P~~~~a~~~Lg~~~~~~g~~~eA~~~l~~Al~~~--p~~~~~~~~~~ll~~~~~~~~~~~g~  359 (1157)
T PRK11447        282 SGQGGKAIPELQQAVRANPKDSEALGALGQAYSQQGDRARAVAQFEKALALD--PHSSNRDKWESLLKVNRYWLLIQQGD  359 (1157)
T ss_pred             CCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCccchhHHHHHHHhhhHHHHHHHHH
Confidence            399999999999764   4577899999999999999999999999988753  4321   121            2244


Q ss_pred             HhhchhcHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhcCCHHHHHHHhhCCCCC---chhhHHHHHHHHHhcCChHHH
Q 039362           72 ASGRLAKRELAVAVHAQIAKTGYESDLFISNSLIHMYGSCGDIVYAREVFDGMPTK---MSVSWNSMLDGYAKCGEMNMA  148 (440)
Q Consensus        72 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a  148 (440)
                      .+.+.|++++|...++++.+..+ .+...+..+..++...|++++|++.|+++.+.   +...+..+...+. .++.++|
T Consensus       360 ~~~~~g~~~eA~~~~~~Al~~~P-~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~p~~~~a~~~L~~l~~-~~~~~~A  437 (1157)
T PRK11447        360 AALKANNLAQAERLYQQARQVDN-TDSYAVLGLGDVAMARKDYAAAERYYQQALRMDPGNTNAVRGLANLYR-QQSPEKA  437 (1157)
T ss_pred             HHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHH-hcCHHHH
Confidence            56788999999999999999864 36777888999999999999999999988742   3445666666664 4678999


Q ss_pred             HHHHhhCCCCc------------hhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHH
Q 039362          149 RQVFELMPERN------------VVSWSALIDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRM  216 (440)
Q Consensus       149 ~~~~~~~~~~~------------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  216 (440)
                      ...++.+....            ...+..+...+...|++++|++.|++..+.. +-+...+..+...+.+.|++++|..
T Consensus       438 ~~~l~~l~~~~~~~~~~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~~-P~~~~~~~~LA~~~~~~G~~~~A~~  516 (1157)
T PRK11447        438 LAFIASLSASQRRSIDDIERSLQNDRLAQQAEALENQGKWAQAAELQRQRLALD-PGSVWLTYRLAQDLRQAGQRSQADA  516 (1157)
T ss_pred             HHHHHhCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHH
Confidence            99998876421            2235566778889999999999999998874 3356677788889999999999999


Q ss_pred             HHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCCc--h---------hhHHHHHHHHHhcCChHHHHHH
Q 039362          217 MLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQSD--V---------LIWNAMIGGLAMHGFVKESLEL  285 (440)
Q Consensus       217 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~--~---------~~~~~l~~~~~~~~~~~~a~~~  285 (440)
                      .++++.+.. +.+...+..+...+...++.++|+..++.+.....+  .         ..+..+...+...|+.++|..+
T Consensus       517 ~l~~al~~~-P~~~~~~~a~al~l~~~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~l~~~G~~~eA~~~  595 (1157)
T PRK11447        517 LMRRLAQQK-PNDPEQVYAYGLYLSGSDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLETANRLRDSGKEAEAEAL  595 (1157)
T ss_pred             HHHHHHHcC-CCCHHHHHHHHHHHHhCCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHHHHHHHCCCHHHHHHH
Confidence            999998765 556666666677778899999999999987643221  1         1123456678889999999999


Q ss_pred             HHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcC-CCCcc
Q 039362          286 FTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQM-PLEPT  364 (440)
Q Consensus       286 ~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p~  364 (440)
                      ++.     .+++...+..+...+.+.|++++|+..|+++.+.. +.+...+..++..|...|++++|++.++.. ...|+
T Consensus       596 l~~-----~p~~~~~~~~La~~~~~~g~~~~A~~~y~~al~~~-P~~~~a~~~la~~~~~~g~~~eA~~~l~~ll~~~p~  669 (1157)
T PRK11447        596 LRQ-----QPPSTRIDLTLADWAQQRGDYAAARAAYQRVLTRE-PGNADARLGLIEVDIAQGDLAAARAQLAKLPATAND  669 (1157)
T ss_pred             HHh-----CCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHhccCCC
Confidence            872     25566677888899999999999999999999864 236778889999999999999999999987 45554


Q ss_pred             -HhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCCc------hHHHHHHHHHhccChHHHHHHHHHHHh
Q 039362          365 -ASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDG------RYVGLSNVYAIFKRWDEARTTREAMET  427 (440)
Q Consensus       365 -~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~------~~~~l~~~~~~~g~~~~A~~~~~~~~~  427 (440)
                       ..++..+..++...|++++|.+++++++...|+++.      .+..++..+...|++++|...+++...
T Consensus       670 ~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~~~~~~~~~~a~~~~~~a~~~~~~G~~~~A~~~y~~Al~  739 (1157)
T PRK11447        670 SLNTQRRVALAWAALGDTAAAQRTFNRLIPQAKSQPPSMESALVLRDAARFEAQTGQPQQALETYKDAMV  739 (1157)
T ss_pred             ChHHHHHHHHHHHhCCCHHHHHHHHHHHhhhCccCCcchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence             466777888899999999999999999998765543      566678899999999999999999864

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.95  E-value=1.2e-23  Score=211.78  Aligned_cols=317  Identities=13%  Similarity=0.075  Sum_probs=193.8

Q ss_pred             HHHHhcCCHHHHHHHhhCCCC---CchhhHHHHHHHHHhcCChHHHHHHHhhCCC--Cch---hhHH------------H
Q 039362          106 HMYGSCGDIVYAREVFDGMPT---KMSVSWNSMLDGYAKCGEMNMARQVFELMPE--RNV---VSWS------------A  165 (440)
Q Consensus       106 ~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~~~---~~~~------------~  165 (440)
                      ..+...|++++|+..|++...   .+...+..+..++.+.|++++|+..|++..+  |+.   ..|.            .
T Consensus       277 ~~~~~~g~~~~A~~~l~~aL~~~P~~~~a~~~Lg~~~~~~g~~~eA~~~l~~Al~~~p~~~~~~~~~~ll~~~~~~~~~~  356 (1157)
T PRK11447        277 LAAVDSGQGGKAIPELQQAVRANPKDSEALGALGQAYSQQGDRARAVAQFEKALALDPHSSNRDKWESLLKVNRYWLLIQ  356 (1157)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccchhHHHHHHHhhhHHHHHH
Confidence            344555666666666555432   2344555555555666666666666555443  211   1111            1


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhH------------
Q 039362          166 LIDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQ------------  233 (440)
Q Consensus       166 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~------------  233 (440)
                      ....+.+.|++++|...|+++.... +.+...+..+..++...|++++|++.|+++.+.. +.+...+            
T Consensus       357 ~g~~~~~~g~~~eA~~~~~~Al~~~-P~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~-p~~~~a~~~L~~l~~~~~~  434 (1157)
T PRK11447        357 QGDAALKANNLAQAERLYQQARQVD-NTDSYAVLGLGDVAMARKDYAAAERYYQQALRMD-PGNTNAVRGLANLYRQQSP  434 (1157)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCH
Confidence            1233445555666666665555542 2233444445555555566666665555555443 2222221            


Q ss_pred             ------------------------------HHHHHHHHhcCCHHHHHHHHhhhhhcCCc-hhhHHHHHHHHHhcCChHHH
Q 039362          234 ------------------------------TSLIDMYAKCGAIKEALIVFHGVEKHQSD-VLIWNAMIGGLAMHGFVKES  282 (440)
Q Consensus       234 ------------------------------~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a  282 (440)
                                                    ..+...+...|++++|+..|++..+..|+ ...+..+...|.+.|++++|
T Consensus       435 ~~A~~~l~~l~~~~~~~~~~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~~P~~~~~~~~LA~~~~~~G~~~~A  514 (1157)
T PRK11447        435 EKALAFIASLSASQRRSIDDIERSLQNDRLAQQAEALENQGKWAQAAELQRQRLALDPGSVWLTYRLAQDLRQAGQRSQA  514 (1157)
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHH
Confidence                                          12334445667777777777777766663 45566677777777777777


Q ss_pred             HHHHHHHHHcCCCccHhhHHHH--------------------------------------------HHHHHcCCChHHHH
Q 039362          283 LELFTEMQIVGITPDEITFLGL--------------------------------------------LSACAHGGLVMEAW  318 (440)
Q Consensus       283 ~~~~~~m~~~~~~p~~~~~~~l--------------------------------------------~~~~~~~~~~~~a~  318 (440)
                      ...++++.+.. +.+...+..+                                            ...+...|+.++|.
T Consensus       515 ~~~l~~al~~~-P~~~~~~~a~al~l~~~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~l~~~G~~~eA~  593 (1157)
T PRK11447        515 DALMRRLAQQK-PNDPEQVYAYGLYLSGSDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLETANRLRDSGKEAEAE  593 (1157)
T ss_pred             HHHHHHHHHcC-CCCHHHHHHHHHHHHhCCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHHHHHHHCCCHHHHH
Confidence            77777776542 2222222222                                            22333445555555


Q ss_pred             HHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcC-CCCc-cHhHHHHHHHHHHhcCChhHHHHHHHHHHhcCC
Q 039362          319 YFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQM-PLEP-TASMLGSLLTGCMNHGKLDLAEIVGKKLVELQP  396 (440)
Q Consensus       319 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  396 (440)
                      .+++.     .+.+...+..+...+.+.|++++|++.|++. ...| +...+..++..+...|++++|+..++++.+..|
T Consensus       594 ~~l~~-----~p~~~~~~~~La~~~~~~g~~~~A~~~y~~al~~~P~~~~a~~~la~~~~~~g~~~eA~~~l~~ll~~~p  668 (1157)
T PRK11447        594 ALLRQ-----QPPSTRIDLTLADWAQQRGDYAAARAAYQRVLTREPGNADARLGLIEVDIAQGDLAAARAQLAKLPATAN  668 (1157)
T ss_pred             HHHHh-----CCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHhccCC
Confidence            54441     1334556677888888889999999988887 4555 457778888888889999999999998888888


Q ss_pred             CCCchHHHHHHHHHhccChHHHHHHHHHHHhcCC
Q 039362          397 DHDGRYVGLSNVYAIFKRWDEARTTREAMETRGV  430 (440)
Q Consensus       397 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  430 (440)
                      .++..+..++.++...|++++|.+++++++....
T Consensus       669 ~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~~  702 (1157)
T PRK11447        669 DSLNTQRRVALAWAALGDTAAAQRTFNRLIPQAK  702 (1157)
T ss_pred             CChHHHHHHHHHHHhCCCHHHHHHHHHHHhhhCc
Confidence            8888888888888889999999999998877543

>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=99.95  E-value=2.3e-23  Score=197.28  Aligned_cols=394  Identities=16%  Similarity=0.052  Sum_probs=296.9

Q ss_pred             HHHHHHHHHHccCChhhHHHHHHHHHHcCCCCCcchHHHHHHHhhchhcHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHH
Q 039362           30 YWNTVIRGYSKSKNPNKSISLFVKMLRAGVSPDHLTYPFLAKASGRLAKRELAVAVHAQIAKTGYESDLFISNSLIHMYG  109 (440)
Q Consensus        30 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  109 (440)
                      .+......+.+.|++++|+..|++.++  +.|+...|..+..++...|++++|++.++..++.++. +...+..+..+|.
T Consensus       129 ~~k~~G~~~~~~~~~~~Ai~~y~~al~--~~p~~~~~~n~a~~~~~l~~~~~Ai~~~~~al~l~p~-~~~a~~~~a~a~~  205 (615)
T TIGR00990       129 KLKEKGNKAYRNKDFNKAIKLYSKAIE--CKPDPVYYSNRAACHNALGDWEKVVEDTTAALELDPD-YSKALNRRANAYD  205 (615)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHh--cCCchHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHH
Confidence            455677889999999999999999887  4678888999999999999999999999999987643 6778888999999


Q ss_pred             hcCCHHHHHHHhhCCCCC---chhhHHHHHHHHHhcCChHHHHHHHhhCCC-----------------------------
Q 039362          110 SCGDIVYAREVFDGMPTK---MSVSWNSMLDGYAKCGEMNMARQVFELMPE-----------------------------  157 (440)
Q Consensus       110 ~~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----------------------------  157 (440)
                      ..|++++|...|..+...   +......++...........+...++.-..                             
T Consensus       206 ~lg~~~eA~~~~~~~~~~~~~~~~~~~~~~~~~l~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  285 (615)
T TIGR00990       206 GLGKYADALLDLTASCIIDGFRNEQSAQAVERLLKKFAESKAKEILETKPENLPSVTFVGNYLQSFRPKPRPAGLEDSNE  285 (615)
T ss_pred             HcCCHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHccCCcchhhhhcccc
Confidence            999999998877544321   111111111111111111122222211110                             


Q ss_pred             Cc---hhhHHHHHHH---HHhcCCHHHHHHHHHHHHhcC-CCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCc
Q 039362          158 RN---VVSWSALIDG---YVKCGDYKEALVIFEEMRDVG-SKA-NEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLT  229 (440)
Q Consensus       158 ~~---~~~~~~l~~~---~~~~~~~~~a~~~~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  229 (440)
                      .+   ...+..+...   ....+++++|.+.|++....+ ..| ....+..+...+...|++++|...+++..+.. +..
T Consensus       286 ~~~~~~~~~~~l~~~~~e~~~~~~y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal~l~-P~~  364 (615)
T TIGR00990       286 LDEETGNGQLQLGLKSPESKADESYEEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADLSKSIELD-PRV  364 (615)
T ss_pred             cccccccchHHHHHHHHHhhhhhhHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCc
Confidence            00   0011111111   122468999999999998764 233 34567777788889999999999999998875 555


Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCC-chhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHH
Q 039362          230 LPLQTSLIDMYAKCGAIKEALIVFHGVEKHQS-DVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSAC  308 (440)
Q Consensus       230 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~  308 (440)
                      ...+..+..++...|++++|...|+++.+..| +...|..+...+...|++++|...|++..+.. +.+...+..+...+
T Consensus       365 ~~~~~~la~~~~~~g~~~eA~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~-P~~~~~~~~la~~~  443 (615)
T TIGR00990       365 TQSYIKRASMNLELGDPDKAEEDFDKALKLNSEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLD-PDFIFSHIQLGVTQ  443 (615)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-ccCHHHHHHHHHHH
Confidence            77888999999999999999999999987766 57788999999999999999999999998764 44566777888889


Q ss_pred             HcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcC-CCCccH-h-------HHHHHHHHHHhcC
Q 039362          309 AHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQM-PLEPTA-S-------MLGSLLTGCMNHG  379 (440)
Q Consensus       309 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p~~-~-------~~~~l~~~~~~~g  379 (440)
                      .+.|++++|+..|++..+.. +.+...++.+...+...|++++|++.|++. .+.|+. .       .++..+..+...|
T Consensus       444 ~~~g~~~eA~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~p~~~~~~~~~~~l~~~a~~~~~~~~  522 (615)
T TIGR00990       444 YKEGSIASSMATFRRCKKNF-PEAPDVYNYYGELLLDQNKFDEAIEKFDTAIELEKETKPMYMNVLPLINKALALFQWKQ  522 (615)
T ss_pred             HHCCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCccccccccHHHHHHHHHHHHHHhh
Confidence            99999999999999998753 235678889999999999999999999986 444432 1       1122222334479


Q ss_pred             ChhHHHHHHHHHHhcCCCCCchHHHHHHHHHhccChHHHHHHHHHHHhcC
Q 039362          380 KLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEARTTREAMETRG  429 (440)
Q Consensus       380 ~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  429 (440)
                      ++++|..+++++++.+|.+...+..++.++.+.|++++|.+.|++..+..
T Consensus       523 ~~~eA~~~~~kAl~l~p~~~~a~~~la~~~~~~g~~~eAi~~~e~A~~l~  572 (615)
T TIGR00990       523 DFIEAENLCEKALIIDPECDIAVATMAQLLLQQGDVDEALKLFERAAELA  572 (615)
T ss_pred             hHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHh
Confidence            99999999999999999998899999999999999999999999987653

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

Probab=99.95  E-value=2.9e-25  Score=191.93  Aligned_cols=369  Identities=16%  Similarity=0.200  Sum_probs=169.8

Q ss_pred             HHHHHHHHHHccCChhhHHHHHHHHHHcCCCC-CcchHHHHHHHhhchhcHHHHHHHHHHHHHcCCCCcH-HHHHHHHHH
Q 039362           30 YWNTVIRGYSKSKNPNKSISLFVKMLRAGVSP-DHLTYPFLAKASGRLAKRELAVAVHAQIAKTGYESDL-FISNSLIHM  107 (440)
Q Consensus        30 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~  107 (440)
                      +|..+.+.+-..|+++.|+.+++.+.+.  +| ....|..+..++...|+.+.|.+.|.+.++.+  |+. ...+.+...
T Consensus       118 ~ysn~aN~~kerg~~~~al~~y~~aiel--~p~fida~inla~al~~~~~~~~a~~~~~~alqln--P~l~ca~s~lgnL  193 (966)
T KOG4626|consen  118 AYSNLANILKERGQLQDALALYRAAIEL--KPKFIDAYINLAAALVTQGDLELAVQCFFEALQLN--PDLYCARSDLGNL  193 (966)
T ss_pred             HHHHHHHHHHHhchHHHHHHHHHHHHhc--CchhhHHHhhHHHHHHhcCCCcccHHHHHHHHhcC--cchhhhhcchhHH
Confidence            3444444444555555555555554442  22 23344444445555555555555554444432  221 122223333


Q ss_pred             HHhcCCHHHHHHHhhCCCCC---chhhHHHHHHHHHhcCChHHHHHHHhhCCCCc---hhhHHHHHHHHHhcCCHHHHHH
Q 039362          108 YGSCGDIVYAREVFDGMPTK---MSVSWNSMLDGYAKCGEMNMARQVFELMPERN---VVSWSALIDGYVKCGDYKEALV  181 (440)
Q Consensus       108 ~~~~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~  181 (440)
                      +...|++.+|...+.+..+.   -.+.|+.|...+...|+...|++.|++..+-|   ...|-.|...|...+.+++|..
T Consensus       194 lka~Grl~ea~~cYlkAi~~qp~fAiawsnLg~~f~~~Gei~~aiq~y~eAvkldP~f~dAYiNLGnV~ke~~~~d~Avs  273 (966)
T KOG4626|consen  194 LKAEGRLEEAKACYLKAIETQPCFAIAWSNLGCVFNAQGEIWLAIQHYEEAVKLDPNFLDAYINLGNVYKEARIFDRAVS  273 (966)
T ss_pred             HHhhcccchhHHHHHHHHhhCCceeeeehhcchHHhhcchHHHHHHHHHHhhcCCCcchHHHhhHHHHHHHHhcchHHHH
Confidence            33344444444444433321   12344444445555555555555555444311   2344444555555555555555


Q ss_pred             HHHHHHhcCCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhcC
Q 039362          182 IFEEMRDVGSKA-NEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQ  260 (440)
Q Consensus       182 ~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  260 (440)
                      .|.+....  .| ....+..+...|..+|.++.|+..|++.++.. |.-+..|+.|..++-..|+..+|.+.|.+.....
T Consensus       274 ~Y~rAl~l--rpn~A~a~gNla~iYyeqG~ldlAI~~Ykral~~~-P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l~  350 (966)
T KOG4626|consen  274 CYLRALNL--RPNHAVAHGNLACIYYEQGLLDLAIDTYKRALELQ-PNFPDAYNNLANALKDKGSVTEAVDCYNKALRLC  350 (966)
T ss_pred             HHHHHHhc--CCcchhhccceEEEEeccccHHHHHHHHHHHHhcC-CCchHHHhHHHHHHHhccchHHHHHHHHHHHHhC
Confidence            55444433  22 22334444444445555555555555554443 3333445555555555555555555555544444


Q ss_pred             Cc-hhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcc-HhhHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCC-cchHH
Q 039362          261 SD-VLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPD-EITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPK-SEHYA  337 (440)
Q Consensus       261 ~~-~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~  337 (440)
                      |+ ....+.|...|...|.+++|..+|....+-  .|. ...++.|...|-+.|++++|+..|++.++  +.|+ ...|+
T Consensus       351 p~hadam~NLgni~~E~~~~e~A~~ly~~al~v--~p~~aaa~nNLa~i~kqqgnl~~Ai~~Ykealr--I~P~fAda~~  426 (966)
T KOG4626|consen  351 PNHADAMNNLGNIYREQGKIEEATRLYLKALEV--FPEFAAAHNNLASIYKQQGNLDDAIMCYKEALR--IKPTFADALS  426 (966)
T ss_pred             CccHHHHHHHHHHHHHhccchHHHHHHHHHHhh--ChhhhhhhhhHHHHHHhcccHHHHHHHHHHHHh--cCchHHHHHH
Confidence            42 344445555555555555555555544432  222 22344444455555555555555555444  2332 23444


Q ss_pred             HHHHHHHhcCCHHHHHHHHhcC-CCCccH-hHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCCchHHHHHHHH
Q 039362          338 CMVDALSRAGQVTEAYEFICQM-PLEPTA-SMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVY  409 (440)
Q Consensus       338 ~l~~~~~~~~~~~~a~~~~~~~-~~~p~~-~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~  409 (440)
                      .+...|...|+.+.|.+.+.+. .+.|.. ..++.|...+...|+..+|+.-|+.++++.|+.+.++-.++.++
T Consensus       427 NmGnt~ke~g~v~~A~q~y~rAI~~nPt~AeAhsNLasi~kDsGni~~AI~sY~~aLklkPDfpdA~cNllh~l  500 (966)
T KOG4626|consen  427 NMGNTYKEMGDVSAAIQCYTRAIQINPTFAEAHSNLASIYKDSGNIPEAIQSYRTALKLKPDFPDAYCNLLHCL  500 (966)
T ss_pred             hcchHHHHhhhHHHHHHHHHHHHhcCcHHHHHHhhHHHHhhccCCcHHHHHHHHHHHccCCCCchhhhHHHHHH
Confidence            4455555555555555555444 344432 34444555555555555555555555555555555444444443

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

Probab=99.95  E-value=2e-24  Score=186.78  Aligned_cols=414  Identities=13%  Similarity=0.081  Sum_probs=348.2

Q ss_pred             ccCChhhHHHHhhhcC---CCChHHHHHHHHHHHccCChhhHHHHHHHHHHcCCCCCcchHHHHHHHhhchhcHHHHHHH
Q 039362            9 YLGNIDYSCKVLSHLS---NPRIFYWNTVIRGYSKSKNPNKSISLFVKMLRAGVSPDHLTYPFLAKASGRLAKRELAVAV   85 (440)
Q Consensus         9 ~~g~~~~A~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~   85 (440)
                      +.|++++|++.-...-   +.+....-.+-..+.+..++++...--....+. .+--..+|..+...+-..|++++|+.+
T Consensus        60 q~gd~~~a~~h~nmv~~~d~t~~~~llll~ai~~q~~r~d~s~a~~~~a~r~-~~q~ae~ysn~aN~~kerg~~~~al~~  138 (966)
T KOG4626|consen   60 QGGDYKQAEKHCNMVGQEDPTNTERLLLLSAIFFQGSRLDKSSAGSLLAIRK-NPQGAEAYSNLANILKERGQLQDALAL  138 (966)
T ss_pred             hccCHHHHHHHHhHhhccCCCcccceeeehhhhhcccchhhhhhhhhhhhhc-cchHHHHHHHHHHHHHHhchHHHHHHH
Confidence            3499999998765443   222223333445566767777666544444443 233467899999999999999999999


Q ss_pred             HHHHHHcCCCCcHHHHHHHHHHHHhcCCHHHHHHHhhCCCCCch--hh-HHHHHHHHHhcCChHHHHHHHhhCCC--Cc-
Q 039362           86 HAQIAKTGYESDLFISNSLIHMYGSCGDIVYAREVFDGMPTKMS--VS-WNSMLDGYAKCGEMNMARQVFELMPE--RN-  159 (440)
Q Consensus        86 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~--~~-~~~l~~~~~~~~~~~~a~~~~~~~~~--~~-  159 (440)
                      ++.+++..+. ....|..+..++...|+.+.|.+.|.+..+-++  .. .+.+...+...|++++|...|.+..+  |. 
T Consensus       139 y~~aiel~p~-fida~inla~al~~~~~~~~a~~~~~~alqlnP~l~ca~s~lgnLlka~Grl~ea~~cYlkAi~~qp~f  217 (966)
T KOG4626|consen  139 YRAAIELKPK-FIDAYINLAAALVTQGDLELAVQCFFEALQLNPDLYCARSDLGNLLKAEGRLEEAKACYLKAIETQPCF  217 (966)
T ss_pred             HHHHHhcCch-hhHHHhhHHHHHHhcCCCcccHHHHHHHHhcCcchhhhhcchhHHHHhhcccchhHHHHHHHHhhCCce
Confidence            9999998644 688999999999999999999999988876444  32 23345556678999999999988775  43 


Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCC-HHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHH
Q 039362          160 VVSWSALIDGYVKCGDYKEALVIFEEMRDVGSKAN-EVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLID  238 (440)
Q Consensus       160 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  238 (440)
                      ...|+.|...+-.+|+.-.|++.|++..+.  .|+ ...|..+...|...+.++.|...|.+..... +....++..+..
T Consensus       218 AiawsnLg~~f~~~Gei~~aiq~y~eAvkl--dP~f~dAYiNLGnV~ke~~~~d~Avs~Y~rAl~lr-pn~A~a~gNla~  294 (966)
T KOG4626|consen  218 AIAWSNLGCVFNAQGEIWLAIQHYEEAVKL--DPNFLDAYINLGNVYKEARIFDRAVSCYLRALNLR-PNHAVAHGNLAC  294 (966)
T ss_pred             eeeehhcchHHhhcchHHHHHHHHHHhhcC--CCcchHHHhhHHHHHHHHhcchHHHHHHHHHHhcC-CcchhhccceEE
Confidence            467999999999999999999999999876  444 4688899999999999999999999988775 667788899999


Q ss_pred             HHHhcCCHHHHHHHHhhhhhcCCc-hhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHH
Q 039362          239 MYAKCGAIKEALIVFHGVEKHQSD-VLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEA  317 (440)
Q Consensus       239 ~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a  317 (440)
                      .|...|.++-|++.|++..+.+|+ ...|+.|..++-..|+..+|+..+.+..... +.-....+.|...+...|.++.|
T Consensus       295 iYyeqG~ldlAI~~Ykral~~~P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l~-p~hadam~NLgni~~E~~~~e~A  373 (966)
T KOG4626|consen  295 IYYEQGLLDLAIDTYKRALELQPNFPDAYNNLANALKDKGSVTEAVDCYNKALRLC-PNHADAMNNLGNIYREQGKIEEA  373 (966)
T ss_pred             EEeccccHHHHHHHHHHHHhcCCCchHHHhHHHHHHHhccchHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhccchHH
Confidence            999999999999999999998887 6789999999999999999999999988763 33456888999999999999999


Q ss_pred             HHHHHHHhhcCCCCC-cchHHHHHHHHHhcCCHHHHHHHHhcC-CCCccH-hHHHHHHHHHHhcCChhHHHHHHHHHHhc
Q 039362          318 WYFFKSLGKRGMVPK-SEHYACMVDALSRAGQVTEAYEFICQM-PLEPTA-SMLGSLLTGCMNHGKLDLAEIVGKKLVEL  394 (440)
Q Consensus       318 ~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p~~-~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  394 (440)
                      ..+|....+-  .|. ....+.|...|...|++++|+..+++. .++|+. ..++.+...|-..|+.+.|++.+.+++..
T Consensus       374 ~~ly~~al~v--~p~~aaa~nNLa~i~kqqgnl~~Ai~~YkealrI~P~fAda~~NmGnt~ke~g~v~~A~q~y~rAI~~  451 (966)
T KOG4626|consen  374 TRLYLKALEV--FPEFAAAHNNLASIYKQQGNLDDAIMCYKEALRIKPTFADALSNMGNTYKEMGDVSAAIQCYTRAIQI  451 (966)
T ss_pred             HHHHHHHHhh--ChhhhhhhhhHHHHHHhcccHHHHHHHHHHHHhcCchHHHHHHhcchHHHHhhhHHHHHHHHHHHHhc
Confidence            9999999884  454 456788999999999999999999998 889976 78999999999999999999999999999


Q ss_pred             CCCCCchHHHHHHHHHhccChHHHHHHHHHHHhcCC
Q 039362          395 QPDHDGRYVGLSNVYAIFKRWDEARTTREAMETRGV  430 (440)
Q Consensus       395 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  430 (440)
                      +|.-..++..|+..|...|+..+|+.-+++.+....
T Consensus       452 nPt~AeAhsNLasi~kDsGni~~AI~sY~~aLklkP  487 (966)
T KOG4626|consen  452 NPTFAEAHSNLASIYKDSGNIPEAIQSYRTALKLKP  487 (966)
T ss_pred             CcHHHHHHhhHHHHhhccCCcHHHHHHHHHHHccCC
Confidence            999999999999999999999999999999987654

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.94  E-value=1.3e-23  Score=189.32  Aligned_cols=294  Identities=15%  Similarity=0.124  Sum_probs=183.6

Q ss_pred             HhcCChHHHHHHHhhCCC---CchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCC---HHHHHHHHHHHHhcCChHH
Q 039362          140 AKCGEMNMARQVFELMPE---RNVVSWSALIDGYVKCGDYKEALVIFEEMRDVGSKAN---EVTLVSVLCACAHLGALDQ  213 (440)
Q Consensus       140 ~~~~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~  213 (440)
                      ...|++++|...|.++.+   .+..++..+...+...|++++|..+++.+...+..++   ...+..+...+...|++++
T Consensus        46 ~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~~g~~~~  125 (389)
T PRK11788         46 LLNEQPDKAIDLFIEMLKVDPETVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYLKAGLLDR  125 (389)
T ss_pred             HhcCChHHHHHHHHHHHhcCcccHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHCCCHHH
Confidence            344444444444444433   1334555666666666666666666666655421111   1345555666666666666


Q ss_pred             HHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCCch------hhHHHHHHHHHhcCChHHHHHHHH
Q 039362          214 GRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQSDV------LIWNAMIGGLAMHGFVKESLELFT  287 (440)
Q Consensus       214 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~------~~~~~l~~~~~~~~~~~~a~~~~~  287 (440)
                      |..+|+++.+.. +.+..++..++.++...|++++|.+.++.+.+..|+.      ..+..+...+...|++++|...|+
T Consensus       126 A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~  204 (389)
T PRK11788        126 AEELFLQLVDEG-DFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALARGDLDAARALLK  204 (389)
T ss_pred             HHHHHHHHHcCC-cchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCCCHHHHHHHHH
Confidence            666666666543 4455566666666666777777776666665543321      123455566667777777777777


Q ss_pred             HHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcC-CCCccHh
Q 039362          288 EMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQM-PLEPTAS  366 (440)
Q Consensus       288 ~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p~~~  366 (440)
                      ++.+.. +.+...+..+...+.+.|++++|.++++++.+.+......++..++.+|...|++++|...++++ ...|+..
T Consensus       205 ~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~p~~~  283 (389)
T PRK11788        205 KALAAD-PQCVRASILLGDLALAQGDYAAAIEALERVEEQDPEYLSEVLPKLMECYQALGDEAEGLEFLRRALEEYPGAD  283 (389)
T ss_pred             HHHhHC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCch
Confidence            776543 23344566666777777777777777777776432222345666777777777777777777776 4566666


Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCCchHHHHHHHHHh---ccChHHHHHHHHHHHhcCCccCCCC
Q 039362          367 MLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAI---FKRWDEARTTREAMETRGVKKYPGW  436 (440)
Q Consensus       367 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~---~g~~~~A~~~~~~~~~~~~~~~~~~  436 (440)
                      .+..++..+.+.|++++|..+++++.+..|++. .+..++..+..   .|+.+++..+++++.++++.++|.+
T Consensus       284 ~~~~la~~~~~~g~~~~A~~~l~~~l~~~P~~~-~~~~l~~~~~~~~~~g~~~~a~~~~~~~~~~~~~~~p~~  355 (389)
T PRK11788        284 LLLALAQLLEEQEGPEAAQALLREQLRRHPSLR-GFHRLLDYHLAEAEEGRAKESLLLLRDLVGEQLKRKPRY  355 (389)
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHHhCcCHH-HHHHHHHHhhhccCCccchhHHHHHHHHHHHHHhCCCCE
Confidence            667777777778888888888888777777665 44444444432   4577788888888887777777763

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.93  E-value=1.2e-22  Score=183.08  Aligned_cols=296  Identities=16%  Similarity=0.129  Sum_probs=196.0

Q ss_pred             HHHHHccCChhhHHHHHHHHHHcCCCCCcchHHHHHHHhhchhcHHHHHHHHHHHHHcCCCCc---HHHHHHHHHHHHhc
Q 039362           35 IRGYSKSKNPNKSISLFVKMLRAGVSPDHLTYPFLAKASGRLAKRELAVAVHAQIAKTGYESD---LFISNSLIHMYGSC  111 (440)
Q Consensus        35 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~  111 (440)
                      ...+...|++++|+..|+++.+.+ +.+..++..+...+...|++++|..+++.+...+..++   ..++..++..|.+.
T Consensus        42 g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~~  120 (389)
T PRK11788         42 GLNFLLNEQPDKAIDLFIEMLKVD-PETVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYLKA  120 (389)
T ss_pred             HHHHHhcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHC
Confidence            334566788888888888887753 23445677777778888888888888888776532221   24566777777778


Q ss_pred             CCHHHHHHHhhCCCC---CchhhHHHHHHHHHhcCChHHHHHHHhhCCCC--c------hhhHHHHHHHHHhcCCHHHHH
Q 039362          112 GDIVYAREVFDGMPT---KMSVSWNSMLDGYAKCGEMNMARQVFELMPER--N------VVSWSALIDGYVKCGDYKEAL  180 (440)
Q Consensus       112 g~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~------~~~~~~l~~~~~~~~~~~~a~  180 (440)
                      |++++|..+|+++.+   .+..++..++..+.+.|++++|.+.++.+.+.  +      ...+..+...+.+.|++++|.
T Consensus       121 g~~~~A~~~~~~~l~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~  200 (389)
T PRK11788        121 GLLDRAEELFLQLVDEGDFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALARGDLDAAR  200 (389)
T ss_pred             CCHHHHHHHHHHHHcCCcchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCCCHHHHH
Confidence            888888888777754   34456677777777777777777777766541  1      113445566666777777777


Q ss_pred             HHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhcC
Q 039362          181 VIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQ  260 (440)
Q Consensus       181 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  260 (440)
                      ..++++.+.. +.+...+..+...+.+.|++++|.++++++.+.+......++..++.+|...|++++|...++++.+..
T Consensus       201 ~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~  279 (389)
T PRK11788        201 ALLKKALAAD-PQCVRASILLGDLALAQGDYAAAIEALERVEEQDPEYLSEVLPKLMECYQALGDEAEGLEFLRRALEEY  279 (389)
T ss_pred             HHHHHHHhHC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            7777776543 333445566666777777777777777777665422224456667777777777777777777776666


Q ss_pred             CchhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHc---CCChHHHHHHHHHHhhcCCCCCcc
Q 039362          261 SDVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAH---GGLVMEAWYFFKSLGKRGMVPKSE  334 (440)
Q Consensus       261 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~---~~~~~~a~~~~~~~~~~~~~~~~~  334 (440)
                      |+...+..++..+.+.|++++|..+++++.+.  .|+..++..++..+..   .|+.+++..+++++.+.++.|++.
T Consensus       280 p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~--~P~~~~~~~l~~~~~~~~~~g~~~~a~~~~~~~~~~~~~~~p~  354 (389)
T PRK11788        280 PGADLLLALAQLLEEQEGPEAAQALLREQLRR--HPSLRGFHRLLDYHLAEAEEGRAKESLLLLRDLVGEQLKRKPR  354 (389)
T ss_pred             CCchHHHHHHHHHHHhCCHHHHHHHHHHHHHh--CcCHHHHHHHHHHhhhccCCccchhHHHHHHHHHHHHHhCCCC
Confidence            66656666677777777777777777776654  5666666666655543   346677777777777665555544

>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=99.92  E-value=5.6e-21  Score=181.09  Aligned_cols=385  Identities=11%  Similarity=-0.017  Sum_probs=288.4

Q ss_pred             CChhhHHHHhhhcC--CCChHHHHHHHHHHHccCChhhHHHHHHHHHHcCCCCCcchHHHHHHHhhchhcHHHHHHHHHH
Q 039362           11 GNIDYSCKVLSHLS--NPRIFYWNTVIRGYSKSKNPNKSISLFVKMLRAGVSPDHLTYPFLAKASGRLAKRELAVAVHAQ   88 (440)
Q Consensus        11 g~~~~A~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~   88 (440)
                      |++++|++.|++..  .|+...|..+..++.+.|++++|++.++...+.. +.+...|..+..++...|++++|+.-+..
T Consensus       141 ~~~~~Ai~~y~~al~~~p~~~~~~n~a~~~~~l~~~~~Ai~~~~~al~l~-p~~~~a~~~~a~a~~~lg~~~eA~~~~~~  219 (615)
T TIGR00990       141 KDFNKAIKLYSKAIECKPDPVYYSNRAACHNALGDWEKVVEDTTAALELD-PDYSKALNRRANAYDGLGKYADALLDLTA  219 (615)
T ss_pred             CCHHHHHHHHHHHHhcCCchHHHHHHHHHHHHhCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            99999999999865  5788889999999999999999999999998853 23456788899999999999999988877


Q ss_pred             HHHcCCCCcHHHHHHHHHHHHhcCCHHHHHHHhhCCCCC-----------------------------ch---hhHHHHH
Q 039362           89 IAKTGYESDLFISNSLIHMYGSCGDIVYAREVFDGMPTK-----------------------------MS---VSWNSML  136 (440)
Q Consensus        89 ~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-----------------------------~~---~~~~~l~  136 (440)
                      +...+...+... ..++..+........+...++.-...                             +.   ..+..+.
T Consensus       220 ~~~~~~~~~~~~-~~~~~~~l~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~  298 (615)
T TIGR00990       220 SCIIDGFRNEQS-AQAVERLLKKFAESKAKEILETKPENLPSVTFVGNYLQSFRPKPRPAGLEDSNELDEETGNGQLQLG  298 (615)
T ss_pred             HHHhCCCccHHH-HHHHHHHHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHccCCcchhhhhcccccccccccchHHHH
Confidence            665432222221 11111111111112222222221110                             00   0111111


Q ss_pred             HH---HHhcCChHHHHHHHhhCCC-----C-chhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHh
Q 039362          137 DG---YAKCGEMNMARQVFELMPE-----R-NVVSWSALIDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAH  207 (440)
Q Consensus       137 ~~---~~~~~~~~~a~~~~~~~~~-----~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  207 (440)
                      ..   ....+++++|.+.|+...+     | ....|+.+...+...|++++|+..+++..... +-....+..+...+..
T Consensus       299 ~~~~e~~~~~~y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal~l~-P~~~~~~~~la~~~~~  377 (615)
T TIGR00990       299 LKSPESKADESYEEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADLSKSIELD-PRVTQSYIKRASMNLE  377 (615)
T ss_pred             HHHHHhhhhhhHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHH
Confidence            11   1234678999999988764     2 34568888889999999999999999998763 3345678888888999


Q ss_pred             cCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCCc-hhhHHHHHHHHHhcCChHHHHHHH
Q 039362          208 LGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQSD-VLIWNAMIGGLAMHGFVKESLELF  286 (440)
Q Consensus       208 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~  286 (440)
                      .|++++|...++++.+.. +.+..++..+..++...|++++|+..|++..+..|+ ...+..+...+.+.|++++|+..|
T Consensus       378 ~g~~~eA~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~P~~~~~~~~la~~~~~~g~~~eA~~~~  456 (615)
T TIGR00990       378 LGDPDKAEEDFDKALKLN-SEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLDPDFIFSHIQLGVTQYKEGSIASSMATF  456 (615)
T ss_pred             CCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCccCHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            999999999999998876 677889999999999999999999999999988774 667888889999999999999999


Q ss_pred             HHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCCcch------HHHHHHHHHhcCCHHHHHHHHhcC-
Q 039362          287 TEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEH------YACMVDALSRAGQVTEAYEFICQM-  359 (440)
Q Consensus       287 ~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~------~~~l~~~~~~~~~~~~a~~~~~~~-  359 (440)
                      ++..+.. +.+...+..+...+...|++++|+..|++........+...      ++.....+...|++++|.+++++. 
T Consensus       457 ~~al~~~-P~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~p~~~~~~~~~~~l~~~a~~~~~~~~~~~eA~~~~~kAl  535 (615)
T TIGR00990       457 RRCKKNF-PEAPDVYNYYGELLLDQNKFDEAIEKFDTAIELEKETKPMYMNVLPLINKALALFQWKQDFIEAENLCEKAL  535 (615)
T ss_pred             HHHHHhC-CCChHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCccccccccHHHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            9988753 44567888899999999999999999999988632211111      122222344579999999999996 


Q ss_pred             CCCccH-hHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCCc
Q 039362          360 PLEPTA-SMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDG  400 (440)
Q Consensus       360 ~~~p~~-~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~  400 (440)
                      .+.|+. ..+..++..+.+.|++++|+..|+++.++.+....
T Consensus       536 ~l~p~~~~a~~~la~~~~~~g~~~eAi~~~e~A~~l~~~~~e  577 (615)
T TIGR00990       536 IIDPECDIAVATMAQLLLQQGDVDEALKLFERAAELARTEGE  577 (615)
T ss_pred             hcCCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHhccHHH
Confidence            666655 56888999999999999999999999998766443

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.92  E-value=2.8e-21  Score=182.50  Aligned_cols=325  Identities=11%  Similarity=-0.007  Sum_probs=152.7

Q ss_pred             HHHHhhchhcHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhcCCHHHHHHHhhCCCC---CchhhHHHHHHHHHhcCCh
Q 039362           69 LAKASGRLAKRELAVAVHAQIAKTGYESDLFISNSLIHMYGSCGDIVYAREVFDGMPT---KMSVSWNSMLDGYAKCGEM  145 (440)
Q Consensus        69 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~  145 (440)
                      ++..+.+.|+++.|..+++......+. +......++.+....|+++.|...|+++..   .+...+..+...+...|++
T Consensus        48 ~~~~~~~~g~~~~A~~l~~~~l~~~p~-~~~~l~~l~~~~l~~g~~~~A~~~l~~~l~~~P~~~~a~~~la~~l~~~g~~  126 (656)
T PRK15174         48 FAIACLRKDETDVGLTLLSDRVLTAKN-GRDLLRRWVISPLASSQPDAVLQVVNKLLAVNVCQPEDVLLVASVLLKSKQY  126 (656)
T ss_pred             HHHHHHhcCCcchhHHHhHHHHHhCCC-chhHHHHHhhhHhhcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHcCCH
Confidence            333344444444444444444443322 222223333333344444444444444432   1223344444444444444


Q ss_pred             HHHHHHHhhCCC--C-chhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHH
Q 039362          146 NMARQVFELMPE--R-NVVSWSALIDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMI  222 (440)
Q Consensus       146 ~~a~~~~~~~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  222 (440)
                      ++|...++++..  | +...+..+...+...|++++|...++.+...... +...+..+ ..+...|++++|...++.+.
T Consensus       127 ~~Ai~~l~~Al~l~P~~~~a~~~la~~l~~~g~~~eA~~~~~~~~~~~P~-~~~a~~~~-~~l~~~g~~~eA~~~~~~~l  204 (656)
T PRK15174        127 ATVADLAEQAWLAFSGNSQIFALHLRTLVLMDKELQAISLARTQAQEVPP-RGDMIATC-LSFLNKSRLPEDHDLARALL  204 (656)
T ss_pred             HHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCCChHHHHHHHHHHHHhCCC-CHHHHHHH-HHHHHcCCHHHHHHHHHHHH
Confidence            444444444432  1 2334445555555555555555555554433211 11122111 22445555555555555554


Q ss_pred             HcCCCCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCC-chhhHHHHHHHHHhcCChHH----HHHHHHHHHHcCCCcc
Q 039362          223 DKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQS-DVLIWNAMIGGLAMHGFVKE----SLELFTEMQIVGITPD  297 (440)
Q Consensus       223 ~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~----a~~~~~~m~~~~~~p~  297 (440)
                      +....++......+..++...|++++|+..++++....| +...+..+...+...|++++    |...|++..+.. +.+
T Consensus       205 ~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~p~~~~~~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al~l~-P~~  283 (656)
T PRK15174        205 PFFALERQESAGLAVDTLCAVGKYQEAIQTGESALARGLDGAALRRSLGLAYYQSGRSREAKLQAAEHWRHALQFN-SDN  283 (656)
T ss_pred             hcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCchhhHHHHHHHHHHHHhhC-CCC
Confidence            443222223333334455555555555555555554444 23444555555555555553    555555555432 223


Q ss_pred             HhhHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcC-CCCccHhH-HHHHHHHH
Q 039362          298 EITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQM-PLEPTASM-LGSLLTGC  375 (440)
Q Consensus       298 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p~~~~-~~~l~~~~  375 (440)
                      ...+..+...+...|++++|...++++.+.. +.+...+..+...+.+.|++++|...++++ ...|+... +..+..++
T Consensus       284 ~~a~~~lg~~l~~~g~~~eA~~~l~~al~l~-P~~~~a~~~La~~l~~~G~~~eA~~~l~~al~~~P~~~~~~~~~a~al  362 (656)
T PRK15174        284 VRIVTLYADALIRTGQNEKAIPLLQQSLATH-PDLPYVRAMYARALRQVGQYTAASDEFVQLAREKGVTSKWNRYAAAAL  362 (656)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCccchHHHHHHHHHH
Confidence            3455555555555566666666666555532 112333444555555666666666666555 33444322 22234455


Q ss_pred             HhcCChhHHHHHHHHHHhcCCCC
Q 039362          376 MNHGKLDLAEIVGKKLVELQPDH  398 (440)
Q Consensus       376 ~~~g~~~~a~~~~~~~~~~~~~~  398 (440)
                      ...|++++|...|+++.+..|.+
T Consensus       363 ~~~G~~deA~~~l~~al~~~P~~  385 (656)
T PRK15174        363 LQAGKTSEAESVFEHYIQARASH  385 (656)
T ss_pred             HHCCCHHHHHHHHHHHHHhChhh
Confidence            55666666666666666665554

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.92  E-value=7.5e-20  Score=176.81  Aligned_cols=391  Identities=10%  Similarity=-0.021  Sum_probs=262.0

Q ss_pred             hHHHHHH-HHHHHccCChhhHHHHHHHHHHcCCCCCcchHHHHHHHhhc-hhcHHHHHHHHHHHHHcCCCCcHHHHHHHH
Q 039362           28 IFYWNTV-IRGYSKSKNPNKSISLFVKMLRAGVSPDHLTYPFLAKASGR-LAKRELAVAVHAQIAKTGYESDLFISNSLI  105 (440)
Q Consensus        28 ~~~~~~l-~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  105 (440)
                      ..+.... ...|.+.|++++|+.++.++.+.+ +.+......|..+|.. .++ +.+..++..    .++.++.+...++
T Consensus       181 ~~vL~L~~~rlY~~l~dw~~Ai~lL~~L~k~~-pl~~~~~~~L~~ay~q~l~~-~~a~al~~~----~lk~d~~l~~ala  254 (987)
T PRK09782        181 GKTLRTDLLQRAIYLKQWSQADTLYNEARQQN-TLSAAERRQWFDVLLAGQLD-DRLLALQSQ----GIFTDPQSRITYA  254 (987)
T ss_pred             cHHHHHHHHHHHHHHhCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhhCH-HHHHHHhch----hcccCHHHHHHHH
Confidence            4433333 777778888888888888887764 2333445556666666 355 666666442    2335677778888


Q ss_pred             HHHHhcCCHHHHHHHhhCCCC-----CchhhHHH------------------------------HHHHH-----------
Q 039362          106 HMYGSCGDIVYAREVFDGMPT-----KMSVSWNS------------------------------MLDGY-----------  139 (440)
Q Consensus       106 ~~~~~~g~~~~a~~~~~~~~~-----~~~~~~~~------------------------------l~~~~-----------  139 (440)
                      ..|.+.|+.++|.++++++..     +...+|.-                              ++..+           
T Consensus       255 ~~yi~~G~~~~A~~~L~~~~~~~~~~~~~~~~~~~l~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  334 (987)
T PRK09782        255 TALAYRGEKARLQHYLIENKPLFTTDAQEKSWLYLLSKYSANPVQALANYTVQFADNRQYVVGATLPVLLKEGQYDAAQK  334 (987)
T ss_pred             HHHHHCCCHHHHHHHHHhCcccccCCCccHHHHHHHHhccCchhhhccchhhhhHHHHHHHHHHHHHHHHhccHHHHHHH
Confidence            888888888888888887752     11111111                              12222           


Q ss_pred             ----------------------------------------------------HhcCChHHHHHHHhhCCC-C-----chh
Q 039362          140 ----------------------------------------------------AKCGEMNMARQVFELMPE-R-----NVV  161 (440)
Q Consensus       140 ----------------------------------------------------~~~~~~~~a~~~~~~~~~-~-----~~~  161 (440)
                                                                          .+.|+.++|.++|+.... +     +..
T Consensus       335 ~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~y~~~~~~~~~l~q~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  414 (987)
T PRK09782        335 LLATLPANEMLEERYAVSVATRNKAEALRLARLLYQQEPANLTRLDQLTWQLMQNGQSREAADLLLQRYPFQGDARLSQT  414 (987)
T ss_pred             HhcCCCcchHHHHHHhhccccCchhHHHHHHHHHHhcCCCCHHHHHHHHHHHHHcccHHHHHHHHHHhcCCCcccccCHH
Confidence                                                                344444444444444432 0     111


Q ss_pred             hHHHHHHHHHhcCC---HHHHHHH----------------------HHHHHhc-CC-CC--CHHHHHHHHHHHHhcCChH
Q 039362          162 SWSALIDGYVKCGD---YKEALVI----------------------FEEMRDV-GS-KA--NEVTLVSVLCACAHLGALD  212 (440)
Q Consensus       162 ~~~~l~~~~~~~~~---~~~a~~~----------------------~~~~~~~-~~-~~--~~~~~~~l~~~~~~~~~~~  212 (440)
                      ...-++..|.+.+.   ..++..+                      +...... +. ++  +...+..+..++.. ++++
T Consensus       415 l~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~al~~~p~~~~~~a~~~LG~~l~~-~~~~  493 (987)
T PRK09782        415 LMARLASLLESHPYLATPAKVAILSKPLPLAEQRQWQSQLPGIADNCPAIVRLLGDMSPSYDAAAWNRLAKCYRD-TLPG  493 (987)
T ss_pred             HHHHHHHHHHhCCcccchHHHHHhccccccchhHHHHhhhhhhhhhHHHHHHhcccCCCCCCHHHHHHHHHHHHh-CCcH
Confidence            22234444444433   2222221                      1111000 11 22  34455555555554 6777


Q ss_pred             HHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCCchhhHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 039362          213 QGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQSDVLIWNAMIGGLAMHGFVKESLELFTEMQIV  292 (440)
Q Consensus       213 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~  292 (440)
                      +|...+.......  |+......+...+...|++++|...|+++....|+...+..+...+.+.|++++|...+++..+.
T Consensus       494 eAi~a~~~Al~~~--Pd~~~~L~lA~al~~~Gr~eeAi~~~rka~~~~p~~~a~~~la~all~~Gd~~eA~~~l~qAL~l  571 (987)
T PRK09782        494 VALYAWLQAEQRQ--PDAWQHRAVAYQAYQVEDYATALAAWQKISLHDMSNEDLLAAANTAQAAGNGAARDRWLQQAEQR  571 (987)
T ss_pred             HHHHHHHHHHHhC--CchHHHHHHHHHHHHCCCHHHHHHHHHHHhccCCCcHHHHHHHHHHHHCCCHHHHHHHHHHHHhc
Confidence            7888777766553  44444444455557889999999999988766666666777778888899999999999998876


Q ss_pred             CCCccHhhHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcC-CCCcc-HhHHHH
Q 039362          293 GITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQM-PLEPT-ASMLGS  370 (440)
Q Consensus       293 ~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p~-~~~~~~  370 (440)
                      . +++...+..+.......|++++|...+++..+.  .|+...+..+...+.+.|++++|...+++. ...|+ ...+..
T Consensus       572 ~-P~~~~l~~~La~~l~~~Gr~~eAl~~~~~AL~l--~P~~~a~~~LA~~l~~lG~~deA~~~l~~AL~l~Pd~~~a~~n  648 (987)
T PRK09782        572 G-LGDNALYWWLHAQRYIPGQPELALNDLTRSLNI--APSANAYVARATIYRQRHNVPAAVSDLRAALELEPNNSNYQAA  648 (987)
T ss_pred             C-CccHHHHHHHHHHHHhCCCHHHHHHHHHHHHHh--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHH
Confidence            4 333333334444555669999999999999885  467778888999999999999999999998 66665 467778


Q ss_pred             HHHHHHhcCChhHHHHHHHHHHhcCCCCCchHHHHHHHHHhccChHHHHHHHHHHHhcCC
Q 039362          371 LLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEARTTREAMETRGV  430 (440)
Q Consensus       371 l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  430 (440)
                      +..++...|++++|+..++++++..|.++..+..++.++...|++++|...+++..+...
T Consensus       649 LG~aL~~~G~~eeAi~~l~~AL~l~P~~~~a~~nLA~al~~lGd~~eA~~~l~~Al~l~P  708 (987)
T PRK09782        649 LGYALWDSGDIAQSREMLERAHKGLPDDPALIRQLAYVNQRLDDMAATQHYARLVIDDID  708 (987)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCC
Confidence            888899999999999999999999999999999999999999999999999999987653

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.91  E-value=1.1e-20  Score=178.57  Aligned_cols=327  Identities=10%  Similarity=-0.064  Sum_probs=269.2

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHhhCCCC---CchhhHHHHHHHHHhcCChHHHHHHHhhCCC--C-chhhHHHHHHHHHhc
Q 039362          100 ISNSLIHMYGSCGDIVYAREVFDGMPT---KMSVSWNSMLDGYAKCGEMNMARQVFELMPE--R-NVVSWSALIDGYVKC  173 (440)
Q Consensus       100 ~~~~l~~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~-~~~~~~~l~~~~~~~  173 (440)
                      -...++..+.+.|++++|..+++....   .+...+..++.+....|++++|...|+++..  | +...+..+...+...
T Consensus        44 ~~~~~~~~~~~~g~~~~A~~l~~~~l~~~p~~~~~l~~l~~~~l~~g~~~~A~~~l~~~l~~~P~~~~a~~~la~~l~~~  123 (656)
T PRK15174         44 NIILFAIACLRKDETDVGLTLLSDRVLTAKNGRDLLRRWVISPLASSQPDAVLQVVNKLLAVNVCQPEDVLLVASVLLKS  123 (656)
T ss_pred             CHHHHHHHHHhcCCcchhHHHhHHHHHhCCCchhHHHHHhhhHhhcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHc
Confidence            344566778899999999999988754   3455667777788889999999999999875  3 566788889999999


Q ss_pred             CCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHH
Q 039362          174 GDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVF  253 (440)
Q Consensus       174 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  253 (440)
                      |++++|...++++.... +.+...+..+...+...|++++|...++.+.... +.+...+..+ ..+...|++++|...+
T Consensus       124 g~~~~Ai~~l~~Al~l~-P~~~~a~~~la~~l~~~g~~~eA~~~~~~~~~~~-P~~~~a~~~~-~~l~~~g~~~eA~~~~  200 (656)
T PRK15174        124 KQYATVADLAEQAWLAF-SGNSQIFALHLRTLVLMDKELQAISLARTQAQEV-PPRGDMIATC-LSFLNKSRLPEDHDLA  200 (656)
T ss_pred             CCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCChHHHHHHHHHHHHhC-CCCHHHHHHH-HHHHHcCCHHHHHHHH
Confidence            99999999999998763 4456678888899999999999999999887765 3444444444 3478899999999999


Q ss_pred             hhhhhcCC--chhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHH----HHHHHHHHhhc
Q 039362          254 HGVEKHQS--DVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVME----AWYFFKSLGKR  327 (440)
Q Consensus       254 ~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~----a~~~~~~~~~~  327 (440)
                      +.+.+..|  +...+..+...+...|++++|+..++++.+.. +.+...+..+...+...|++++    |...++++.+.
T Consensus       201 ~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~-p~~~~~~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al~l  279 (656)
T PRK15174        201 RALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALARG-LDGAALRRSLGLAYYQSGRSREAKLQAAEHWRHALQF  279 (656)
T ss_pred             HHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCchhhHHHHHHHHHHHHhh
Confidence            99876543  33444556778889999999999999998764 4456678888999999999986    89999999885


Q ss_pred             CCCCCcchHHHHHHHHHhcCCHHHHHHHHhcC-CCCcc-HhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCCchHHHH
Q 039362          328 GMVPKSEHYACMVDALSRAGQVTEAYEFICQM-PLEPT-ASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGL  405 (440)
Q Consensus       328 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l  405 (440)
                      . +.+...+..+...+...|++++|...+++. ...|+ ...+..+..++.+.|++++|+..++++.+.+|.+...+..+
T Consensus       280 ~-P~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l~P~~~~a~~~La~~l~~~G~~~eA~~~l~~al~~~P~~~~~~~~~  358 (656)
T PRK15174        280 N-SDNVRIVTLYADALIRTGQNEKAIPLLQQSLATHPDLPYVRAMYARALRQVGQYTAASDEFVQLAREKGVTSKWNRYA  358 (656)
T ss_pred             C-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCccchHHHHHH
Confidence            4 225667889999999999999999999998 55665 45677788999999999999999999999999887667777


Q ss_pred             HHHHHhccChHHHHHHHHHHHhcCCc
Q 039362          406 SNVYAIFKRWDEARTTREAMETRGVK  431 (440)
Q Consensus       406 ~~~~~~~g~~~~A~~~~~~~~~~~~~  431 (440)
                      +.++...|++++|...|++..+....
T Consensus       359 a~al~~~G~~deA~~~l~~al~~~P~  384 (656)
T PRK15174        359 AAALLQAGKTSEAESVFEHYIQARAS  384 (656)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhChh
Confidence            88999999999999999999877543

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.91  E-value=6.3e-20  Score=177.04  Aligned_cols=92  Identities=13%  Similarity=0.054  Sum_probs=50.3

Q ss_pred             HHHHHHHHhcCCHHHHHHHHhcC-CCCc-cHhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCCchHHHHHHHHHhccC
Q 039362          337 ACMVDALSRAGQVTEAYEFICQM-PLEP-TASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKR  414 (440)
Q Consensus       337 ~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  414 (440)
                      ..+...+...|++++|++.++++ ...| +...+..++..+...|++++|+..++++++..|++...+...+..+...|+
T Consensus       363 ~~~a~~l~~~g~~~eA~~~l~~al~~~P~n~~l~~~lA~l~~~~g~~~~A~~~l~~al~l~Pd~~~l~~~~a~~al~~~~  442 (765)
T PRK10049        363 SLLSQVAKYSNDLPQAEMRARELAYNAPGNQGLRIDYASVLQARGWPRAAENELKKAEVLEPRNINLEVEQAWTALDLQE  442 (765)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhhCCCChHHHHHHHHHHHHhCC
Confidence            34444555555555555555554 2223 334445555555555555556666665555555555555555555555555


Q ss_pred             hHHHHHHHHHHHhc
Q 039362          415 WDEARTTREAMETR  428 (440)
Q Consensus       415 ~~~A~~~~~~~~~~  428 (440)
                      +++|..+++++++.
T Consensus       443 ~~~A~~~~~~ll~~  456 (765)
T PRK10049        443 WRQMDVLTDDVVAR  456 (765)
T ss_pred             HHHHHHHHHHHHHh
Confidence            66655555555543

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.91  E-value=4.4e-20  Score=178.10  Aligned_cols=388  Identities=11%  Similarity=0.009  Sum_probs=298.8

Q ss_pred             CChhhHHHHhhhcC---CCChHHHHHHHHHHHccCChhhHHHHHHHHHHcCCCCCcchHHHHHHHhhchhcHHHHHHHHH
Q 039362           11 GNIDYSCKVLSHLS---NPRIFYWNTVIRGYSKSKNPNKSISLFVKMLRAGVSPDHLTYPFLAKASGRLAKRELAVAVHA   87 (440)
Q Consensus        11 g~~~~A~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~   87 (440)
                      |+.++|++++++..   +.+...+..+...+...|++++|..+|++..+.. +.+...+..++..+...|++++|...++
T Consensus        29 g~~~~A~~~~~~~~~~~~~~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~l~~~g~~~eA~~~l~  107 (765)
T PRK10049         29 GQDAEVITVYNRYRVHMQLPARGYAAVAVAYRNLKQWQNSLTLWQKALSLE-PQNDDYQRGLILTLADAGQYDEALVKAK  107 (765)
T ss_pred             CCHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            99999999999865   3455579999999999999999999999998852 3345667788888999999999999999


Q ss_pred             HHHHcCCCCcHHHHHHHHHHHHhcCCHHHHHHHhhCCCC--C-chhhHHHHHHHHHhcCChHHHHHHHhhCCC-Cch---
Q 039362           88 QIAKTGYESDLFISNSLIHMYGSCGDIVYAREVFDGMPT--K-MSVSWNSMLDGYAKCGEMNMARQVFELMPE-RNV---  160 (440)
Q Consensus        88 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-~~~---  160 (440)
                      ++.+..+. +.. +..+..++...|+.++|...++++.+  | +...+..+...+...+..++|++.++.+.. |+.   
T Consensus       108 ~~l~~~P~-~~~-~~~la~~l~~~g~~~~Al~~l~~al~~~P~~~~~~~~la~~l~~~~~~e~Al~~l~~~~~~p~~~~~  185 (765)
T PRK10049        108 QLVSGAPD-KAN-LLALAYVYKRAGRHWDELRAMTQALPRAPQTQQYPTEYVQALRNNRLSAPALGAIDDANLTPAEKRD  185 (765)
T ss_pred             HHHHhCCC-CHH-HHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCChHHHHHHHHhCCCCHHHHHH
Confidence            99988543 566 88889999999999999999998875  3 445666778888889999999999998876 221   


Q ss_pred             ---hhHHHHHHHHHhc-----CCH---HHHHHHHHHHHhc-CCCCCHH-HHHHH----HHHHHhcCChHHHHHHHHHHHH
Q 039362          161 ---VSWSALIDGYVKC-----GDY---KEALVIFEEMRDV-GSKANEV-TLVSV----LCACAHLGALDQGRMMLRYMID  223 (440)
Q Consensus       161 ---~~~~~l~~~~~~~-----~~~---~~a~~~~~~~~~~-~~~~~~~-~~~~l----~~~~~~~~~~~~a~~~~~~~~~  223 (440)
                         .....++......     +++   ++|++.++.+.+. ...|+.. .+...    +..+...|++++|+..|+.+.+
T Consensus       186 l~~~~~~~~~r~~~~~~~~~~~r~~~ad~Al~~~~~ll~~~~~~p~~~~~~~~a~~d~l~~Ll~~g~~~eA~~~~~~ll~  265 (765)
T PRK10049        186 LEADAAAELVRLSFMPTRSEKERYAIADRALAQYDALEALWHDNPDATADYQRARIDRLGALLARDRYKDVISEYQRLKA  265 (765)
T ss_pred             HHHHHHHHHHHhhcccccChhHHHHHHHHHHHHHHHHHhhcccCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhc
Confidence               1222233333222     234   7788899988754 2234332 22221    3445677999999999999988


Q ss_pred             cCCCCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCCch-----hhHHHHHHHHHhcCChHHHHHHHHHHHHcCC----
Q 039362          224 KGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQSDV-----LIWNAMIGGLAMHGFVKESLELFTEMQIVGI----  294 (440)
Q Consensus       224 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~-----~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~----  294 (440)
                      .+.+........+..+|...|++++|+..|+++....|..     .....+..++...|++++|..+++.+.....    
T Consensus       266 ~~~~~P~~a~~~la~~yl~~g~~e~A~~~l~~~l~~~p~~~~~~~~~~~~L~~a~~~~g~~~eA~~~l~~~~~~~P~~~~  345 (765)
T PRK10049        266 EGQIIPPWAQRWVASAYLKLHQPEKAQSILTELFYHPETIADLSDEELADLFYSLLESENYPGALTVTAHTINNSPPFLR  345 (765)
T ss_pred             cCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHhhcCCCCCCCChHHHHHHHHHHHhcccHHHHHHHHHHHhhcCCceEe
Confidence            7632111223335789999999999999999987655532     3456667788999999999999999987531    


Q ss_pred             -------CccH---hhHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcC-CCCc
Q 039362          295 -------TPDE---ITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQM-PLEP  363 (440)
Q Consensus       295 -------~p~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p  363 (440)
                             .|+.   ..+..+...+...|+.++|+..++++.... +.+...+..+...+...|++++|++.+++. ...|
T Consensus       346 ~~~~~~~~p~~~~~~a~~~~a~~l~~~g~~~eA~~~l~~al~~~-P~n~~l~~~lA~l~~~~g~~~~A~~~l~~al~l~P  424 (765)
T PRK10049        346 LYGSPTSIPNDDWLQGQSLLSQVAKYSNDLPQAEMRARELAYNA-PGNQGLRIDYASVLQARGWPRAAENELKKAEVLEP  424 (765)
T ss_pred             ecCCCCCCCCchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhhCC
Confidence                   1232   244567778889999999999999998863 335677888999999999999999999998 6677


Q ss_pred             c-HhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCCchH
Q 039362          364 T-ASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRY  402 (440)
Q Consensus       364 ~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~  402 (440)
                      + ...+...+..+...|++++|+.+++++++..|+++.+.
T Consensus       425 d~~~l~~~~a~~al~~~~~~~A~~~~~~ll~~~Pd~~~~~  464 (765)
T PRK10049        425 RNINLEVEQAWTALDLQEWRQMDVLTDDVVAREPQDPGVQ  464 (765)
T ss_pred             CChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCCCHHHH
Confidence            6 46666777788899999999999999999999998543

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.90  E-value=3.9e-19  Score=171.90  Aligned_cols=197  Identities=14%  Similarity=0.052  Sum_probs=157.6

Q ss_pred             chhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCCchhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHH
Q 039362          229 TLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQSDVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSAC  308 (440)
Q Consensus       229 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~  308 (440)
                      +...+..+..++.. ++.++|...+.+.....|+......+...+...|++++|...|+++...  +|+...+..+..++
T Consensus       476 ~~~a~~~LG~~l~~-~~~~eAi~a~~~Al~~~Pd~~~~L~lA~al~~~Gr~eeAi~~~rka~~~--~p~~~a~~~la~al  552 (987)
T PRK09782        476 DAAAWNRLAKCYRD-TLPGVALYAWLQAEQRQPDAWQHRAVAYQAYQVEDYATALAAWQKISLH--DMSNEDLLAAANTA  552 (987)
T ss_pred             CHHHHHHHHHHHHh-CCcHHHHHHHHHHHHhCCchHHHHHHHHHHHHCCCHHHHHHHHHHHhcc--CCCcHHHHHHHHHH
Confidence            45556666666665 6777888878777766776544444455556899999999999987654  45555566777788


Q ss_pred             HcCCChHHHHHHHHHHhhcCCCCCc-chHHHHHHHHHhcCCHHHHHHHHhcC-CCCccHhHHHHHHHHHHhcCChhHHHH
Q 039362          309 AHGGLVMEAWYFFKSLGKRGMVPKS-EHYACMVDALSRAGQVTEAYEFICQM-PLEPTASMLGSLLTGCMNHGKLDLAEI  386 (440)
Q Consensus       309 ~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p~~~~~~~l~~~~~~~g~~~~a~~  386 (440)
                      .+.|+.++|...++...+..  |+. ..+..+.......|++++|...+++. ...|+...+..+..++.+.|++++|+.
T Consensus       553 l~~Gd~~eA~~~l~qAL~l~--P~~~~l~~~La~~l~~~Gr~~eAl~~~~~AL~l~P~~~a~~~LA~~l~~lG~~deA~~  630 (987)
T PRK09782        553 QAAGNGAARDRWLQQAEQRG--LGDNALYWWLHAQRYIPGQPELALNDLTRSLNIAPSANAYVARATIYRQRHNVPAAVS  630 (987)
T ss_pred             HHCCCHHHHHHHHHHHHhcC--CccHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHCCCHHHHHH
Confidence            89999999999999998864  332 23333344445669999999999998 778888889999999999999999999


Q ss_pred             HHHHHHhcCCCCCchHHHHHHHHHhccChHHHHHHHHHHHhcCC
Q 039362          387 VGKKLVELQPDHDGRYVGLSNVYAIFKRWDEARTTREAMETRGV  430 (440)
Q Consensus       387 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  430 (440)
                      .++++++.+|+++..+..++.++...|++++|++.+++.++..+
T Consensus       631 ~l~~AL~l~Pd~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l~P  674 (987)
T PRK09782        631 DLRAALELEPNNSNYQAALGYALWDSGDIAQSREMLERAHKGLP  674 (987)
T ss_pred             HHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC
Confidence            99999999999999999999999999999999999999988654

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.88  E-value=3.9e-18  Score=161.79  Aligned_cols=415  Identities=10%  Similarity=0.023  Sum_probs=300.7

Q ss_pred             ccCChhhHHHHhhhcC--CCCh--HHHHHHHHHHHccCChhhHHHHHHHHHHcCCCCCc-chHHHH--HHHhhchhcHHH
Q 039362            9 YLGNIDYSCKVLSHLS--NPRI--FYWNTVIRGYSKSKNPNKSISLFVKMLRAGVSPDH-LTYPFL--AKASGRLAKREL   81 (440)
Q Consensus         9 ~~g~~~~A~~~~~~~~--~~~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l--~~~~~~~~~~~~   81 (440)
                      +.|+++.|+..|++..  .|+.  ..+ .++..+...|+.++|+..+++..    .|+. ..+..+  ...+...|++++
T Consensus        46 r~Gd~~~Al~~L~qaL~~~P~~~~av~-dll~l~~~~G~~~~A~~~~eka~----~p~n~~~~~llalA~ly~~~gdyd~  120 (822)
T PRK14574         46 RAGDTAPVLDYLQEESKAGPLQSGQVD-DWLQIAGWAGRDQEVIDVYERYQ----SSMNISSRGLASAARAYRNEKRWDQ  120 (822)
T ss_pred             hCCCHHHHHHHHHHHHhhCccchhhHH-HHHHHHHHcCCcHHHHHHHHHhc----cCCCCCHHHHHHHHHHHHHcCCHHH
Confidence            3499999999999876  3442  234 78888888999999999999987    2432 333333  557788899999


Q ss_pred             HHHHHHHHHHcCCCCcHHHHHHHHHHHHhcCCHHHHHHHhhCCCCCchhhHHHHHHHH--HhcCChHHHHHHHhhCCC--
Q 039362           82 AVAVHAQIAKTGYESDLFISNSLIHMYGSCGDIVYAREVFDGMPTKMSVSWNSMLDGY--AKCGEMNMARQVFELMPE--  157 (440)
Q Consensus        82 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~--~~~~~~~~a~~~~~~~~~--  157 (440)
                      |.++++++.+..+. ++..+..++..+...++.++|++.++++...++.....+..++  ...++..+|++.++++.+  
T Consensus       121 Aiely~kaL~~dP~-n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~dp~~~~~l~layL~~~~~~~~~AL~~~ekll~~~  199 (822)
T PRK14574        121 ALALWQSSLKKDPT-NPDLISGMIMTQADAGRGGVVLKQATELAERDPTVQNYMTLSYLNRATDRNYDALQASSEAVRLA  199 (822)
T ss_pred             HHHHHHHHHhhCCC-CHHHHHHHHHHHhhcCCHHHHHHHHHHhcccCcchHHHHHHHHHHHhcchHHHHHHHHHHHHHhC
Confidence            99999999998755 5777788889999999999999999998865444322243444  345666569999998875  


Q ss_pred             C-chhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHH------HHHHHHHH-----HhcCCh---HHHHHHHHHHH
Q 039362          158 R-NVVSWSALIDGYVKCGDYKEALVIFEEMRDVGSKANEVT------LVSVLCAC-----AHLGAL---DQGRMMLRYMI  222 (440)
Q Consensus       158 ~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~------~~~l~~~~-----~~~~~~---~~a~~~~~~~~  222 (440)
                      | +...+..++.++.+.|-...|.++..+-...- .+....      ....++.-     ....++   +.|..-++.+.
T Consensus       200 P~n~e~~~~~~~~l~~~~~~~~a~~l~~~~p~~f-~~~~~~~l~~~~~a~~vr~a~~~~~~~~~r~~~~d~ala~~~~l~  278 (822)
T PRK14574        200 PTSEEVLKNHLEILQRNRIVEPALRLAKENPNLV-SAEHYRQLERDAAAEQVRMAVLPTRSETERFDIADKALADYQNLL  278 (822)
T ss_pred             CCCHHHHHHHHHHHHHcCCcHHHHHHHHhCcccc-CHHHHHHHHHHHHHHHHhhcccccccchhhHHHHHHHHHHHHHHH
Confidence            4 56677888888999999988888776533221 111110      11111100     011222   34445555554


Q ss_pred             HcC--CCCchhh----HHHHHHHHHhcCCHHHHHHHHhhhhhcCC--chhhHHHHHHHHHhcCChHHHHHHHHHHHHcC-
Q 039362          223 DKG--LSLTLPL----QTSLIDMYAKCGAIKEALIVFHGVEKHQS--DVLIWNAMIGGLAMHGFVKESLELFTEMQIVG-  293 (440)
Q Consensus       223 ~~~--~~~~~~~----~~~l~~~~~~~g~~~~A~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~-  293 (440)
                      ..-  .|+....    ..-.+-++...|+..++++.|+.+.....  ...+-..+..+|...+++++|..+++.+.... 
T Consensus       279 ~~~~~~p~~~~~~~~~~~Drl~aL~~r~r~~~vi~~y~~l~~~~~~~P~y~~~a~adayl~~~~P~kA~~l~~~~~~~~~  358 (822)
T PRK14574        279 TRWGKDPEAQADYQRARIDRLGALLVRHQTADLIKEYEAMEAEGYKMPDYARRWAASAYIDRRLPEKAAPILSSLYYSDG  358 (822)
T ss_pred             hhccCCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHhhccc
Confidence            421  1222222    23345677888999999999999985432  34566788899999999999999999986643 


Q ss_pred             ----CCccHhhHHHHHHHHHcCCChHHHHHHHHHHhhcCC-----------CCCcc---hHHHHHHHHHhcCCHHHHHHH
Q 039362          294 ----ITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKRGM-----------VPKSE---HYACMVDALSRAGQVTEAYEF  355 (440)
Q Consensus       294 ----~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-----------~~~~~---~~~~l~~~~~~~~~~~~a~~~  355 (440)
                          .+++......|.-++...+++++|..+++.+.+...           .|+..   .+..++..+...|+..+|++.
T Consensus       359 ~~~~~~~~~~~~~~L~yA~ld~e~~~~A~~~l~~~~~~~p~~~~~~~~~~~~pn~d~~~~~~l~a~~~~~~gdl~~Ae~~  438 (822)
T PRK14574        359 KTFRNSDDLLDADDLYYSLNESEQLDKAYQFAVNYSEQTPYQVGVYGLPGKEPNDDWIEGQTLLVQSLVALNDLPTAQKK  438 (822)
T ss_pred             cccCCCcchHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCcEEeccCCCCCCCCccHHHHHHHHHHHHHHcCCHHHHHHH
Confidence                122333357788899999999999999999987411           12221   234567788899999999999


Q ss_pred             HhcC-CCCc-cHhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCCchHHHHHHHHHhccChHHHHHHHHHHHhcCC
Q 039362          356 ICQM-PLEP-TASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEARTTREAMETRGV  430 (440)
Q Consensus       356 ~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  430 (440)
                      ++++ ...| |......+...+...|.+.+|+..++.+..++|.+..+....+.++...|+|++|..+.+.+.+..+
T Consensus       439 le~l~~~aP~n~~l~~~~A~v~~~Rg~p~~A~~~~k~a~~l~P~~~~~~~~~~~~al~l~e~~~A~~~~~~l~~~~P  515 (822)
T PRK14574        439 LEDLSSTAPANQNLRIALASIYLARDLPRKAEQELKAVESLAPRSLILERAQAETAMALQEWHQMELLTDDVISRSP  515 (822)
T ss_pred             HHHHHHhCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhhCCccHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhCC
Confidence            9998 4445 6788888999999999999999999999999999999999999999999999999999988876543

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.85  E-value=1e-16  Score=152.19  Aligned_cols=389  Identities=12%  Similarity=0.038  Sum_probs=284.9

Q ss_pred             HHHHHccCChhhHHHHHHHHHHcCCCCCc--chHHHHHHHhhchhcHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhcC
Q 039362           35 IRGYSKSKNPNKSISLFVKMLRAGVSPDH--LTYPFLAKASGRLAKRELAVAVHAQIAKTGYESDLFISNSLIHMYGSCG  112 (440)
Q Consensus        35 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  112 (440)
                      +-...+.|+++.|++.|++..+.  .|+.  ..+ .++..+...|+.++|+..+++..... .........+...+...|
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 LIIRARAGDTAPVLDYLQEESKA--GPLQSGQVD-DWLQIAGWAGRDQEVIDVYERYQSSM-NISSRGLASAARAYRNEK  116 (822)
T ss_pred             HHHHHhCCCHHHHHHHHHHHHhh--CccchhhHH-HHHHHHHHcCCcHHHHHHHHHhccCC-CCCHHHHHHHHHHHHHcC
Confidence            33578999999999999999885  4654  244 88888888899999999999998321 223444455567889999


Q ss_pred             CHHHHHHHhhCCCCC---chhhHHHHHHHHHhcCChHHHHHHHhhCCC--CchhhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 039362          113 DIVYAREVFDGMPTK---MSVSWNSMLDGYAKCGEMNMARQVFELMPE--RNVVSWSALIDGYVKCGDYKEALVIFEEMR  187 (440)
Q Consensus       113 ~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  187 (440)
                      ++++|.++|+++.+.   ++..+..++..+...++.++|++.++++..  |+...+..++..+...++..+|++.++++.
T Consensus       117 dyd~Aiely~kaL~~dP~n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~dp~~~~~l~layL~~~~~~~~~AL~~~ekll  196 (822)
T PRK14574        117 RWDQALALWQSSLKKDPTNPDLISGMIMTQADAGRGGVVLKQATELAERDPTVQNYMTLSYLNRATDRNYDALQASSEAV  196 (822)
T ss_pred             CHHHHHHHHHHHHhhCCCCHHHHHHHHHHHhhcCCHHHHHHHHHHhcccCcchHHHHHHHHHHHhcchHHHHHHHHHHHH
Confidence            999999999998753   455677778889999999999999999987  444444334444444666767999999999


Q ss_pred             hcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhH-HHHHHHHH---------hcCC---HHHHHHHHh
Q 039362          188 DVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQ-TSLIDMYA---------KCGA---IKEALIVFH  254 (440)
Q Consensus       188 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-~~l~~~~~---------~~g~---~~~A~~~~~  254 (440)
                      +.+ +-+...+..+..++.+.|-...|.++..+-.+.--+.+..-. ...+.-..         ...+   .+.|+.-++
T Consensus       197 ~~~-P~n~e~~~~~~~~l~~~~~~~~a~~l~~~~p~~f~~~~~~~l~~~~~a~~vr~a~~~~~~~~~r~~~~d~ala~~~  275 (822)
T PRK14574        197 RLA-PTSEEVLKNHLEILQRNRIVEPALRLAKENPNLVSAEHYRQLERDAAAEQVRMAVLPTRSETERFDIADKALADYQ  275 (822)
T ss_pred             HhC-CCCHHHHHHHHHHHHHcCCcHHHHHHHHhCccccCHHHHHHHHHHHHHHHHhhcccccccchhhHHHHHHHHHHHH
Confidence            884 446777788888999999998888777653321111110000 00001111         1122   344555555


Q ss_pred             hhhhc---CCch-h----hHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHhh
Q 039362          255 GVEKH---QSDV-L----IWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGK  326 (440)
Q Consensus       255 ~~~~~---~~~~-~----~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  326 (440)
                      .+...   .|.. .    ..--.+.++...|++.++++.++.+...+.+....+-..+.++|...+.+++|+.+|+.+..
T Consensus       276 ~l~~~~~~~p~~~~~~~~~~~Drl~aL~~r~r~~~vi~~y~~l~~~~~~~P~y~~~a~adayl~~~~P~kA~~l~~~~~~  355 (822)
T PRK14574        276 NLLTRWGKDPEAQADYQRARIDRLGALLVRHQTADLIKEYEAMEAEGYKMPDYARRWAASAYIDRRLPEKAAPILSSLYY  355 (822)
T ss_pred             HHHhhccCCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHhh
Confidence            54432   2321 1    22234567888999999999999999888654556788899999999999999999999977


Q ss_pred             cCC-----CCCcchHHHHHHHHHhcCCHHHHHHHHhcC-CCC-------------cc--H-hHHHHHHHHHHhcCChhHH
Q 039362          327 RGM-----VPKSEHYACMVDALSRAGQVTEAYEFICQM-PLE-------------PT--A-SMLGSLLTGCMNHGKLDLA  384 (440)
Q Consensus       327 ~~~-----~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~-------------p~--~-~~~~~l~~~~~~~g~~~~a  384 (440)
                      ...     .++......|.-+|...+++++|..+++++ ...             |+  - .....++..+.-.|+..+|
T Consensus       356 ~~~~~~~~~~~~~~~~~L~yA~ld~e~~~~A~~~l~~~~~~~p~~~~~~~~~~~~pn~d~~~~~~l~a~~~~~~gdl~~A  435 (822)
T PRK14574        356 SDGKTFRNSDDLLDADDLYYSLNESEQLDKAYQFAVNYSEQTPYQVGVYGLPGKEPNDDWIEGQTLLVQSLVALNDLPTA  435 (822)
T ss_pred             ccccccCCCcchHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCcEEeccCCCCCCCCccHHHHHHHHHHHHHHcCCHHHH
Confidence            521     122333567889999999999999999988 212             22  2 2234456678889999999


Q ss_pred             HHHHHHHHhcCCCCCchHHHHHHHHHhccChHHHHHHHHHHHhc
Q 039362          385 EIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEARTTREAMETR  428 (440)
Q Consensus       385 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  428 (440)
                      ++.++++....|.|+.....++.++...|+..+|.+.++.....
T Consensus       436 e~~le~l~~~aP~n~~l~~~~A~v~~~Rg~p~~A~~~~k~a~~l  479 (822)
T PRK14574        436 QKKLEDLSSTAPANQNLRIALASIYLARDLPRKAEQELKAVESL  479 (822)
T ss_pred             HHHHHHHHHhCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhh
Confidence            99999999999999999999999999999999999999877665

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

Probab=99.84  E-value=8.4e-18  Score=153.39  Aligned_cols=417  Identities=12%  Similarity=0.079  Sum_probs=244.2

Q ss_pred             ChhhHHHHhhhc---CCCChHHHHHHHHHHHccCChhhHHHHHHHHHHcCCC--CCcchHHHHHHHhhchhcHHHHHHHH
Q 039362           12 NIDYSCKVLSHL---SNPRIFYWNTVIRGYSKSKNPNKSISLFVKMLRAGVS--PDHLTYPFLAKASGRLAKRELAVAVH   86 (440)
Q Consensus        12 ~~~~A~~~~~~~---~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~   86 (440)
                      .+..+..++...   .+.|+.+.+.|.+.+.-.|++..++.+...+......  .-...|-.+.+++...|++++|...|
T Consensus       251 s~~~~~~ll~~ay~~n~~nP~~l~~LAn~fyfK~dy~~v~~la~~ai~~t~~~~~~aes~Y~~gRs~Ha~Gd~ekA~~yY  330 (1018)
T KOG2002|consen  251 SYKKGVQLLQRAYKENNENPVALNHLANHFYFKKDYERVWHLAEHAIKNTENKSIKAESFYQLGRSYHAQGDFEKAFKYY  330 (1018)
T ss_pred             HHHHHHHHHHHHHhhcCCCcHHHHHHHHHHhhcccHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHhhccHHHHHHHH
Confidence            345556665543   2566777788888888888888888888777664211  12334777778888888888888888


Q ss_pred             HHHHHcCCCCcHHHHHHHHHHHHhcCCHHHHHHHhhCCCCC---chhhHHHHHHHHHhcC----ChHHHHHHHhhCCCC-
Q 039362           87 AQIAKTGYESDLFISNSLIHMYGSCGDIVYAREVFDGMPTK---MSVSWNSMLDGYAKCG----EMNMARQVFELMPER-  158 (440)
Q Consensus        87 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~----~~~~a~~~~~~~~~~-  158 (440)
                      .+..+.....-...+..+...+.+.|+++.+...|+.+.+.   +..+...|...|...+    ..+.|..++.+..++ 
T Consensus       331 ~~s~k~~~d~~~l~~~GlgQm~i~~~dle~s~~~fEkv~k~~p~~~etm~iLG~Lya~~~~~~~~~d~a~~~l~K~~~~~  410 (1018)
T KOG2002|consen  331 MESLKADNDNFVLPLVGLGQMYIKRGDLEESKFCFEKVLKQLPNNYETMKILGCLYAHSAKKQEKRDKASNVLGKVLEQT  410 (1018)
T ss_pred             HHHHccCCCCccccccchhHHHHHhchHHHHHHHHHHHHHhCcchHHHHHHHHhHHHhhhhhhHHHHHHHHHHHHHHhcc
Confidence            77776543322344556777788888888888888776542   3344455555555443    456666666665542 


Q ss_pred             --chhhHHHHHHHHHhcCCHHHHHHHHHHH----HhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHc---CCCCc
Q 039362          159 --NVVSWSALIDGYVKCGDYKEALVIFEEM----RDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDK---GLSLT  229 (440)
Q Consensus       159 --~~~~~~~l~~~~~~~~~~~~a~~~~~~~----~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~  229 (440)
                        |...|-.+...+....-+.. +..|...    ...+-.+.....+.+...+...|.+..|...|......   ...++
T Consensus       411 ~~d~~a~l~laql~e~~d~~~s-L~~~~~A~d~L~~~~~~ip~E~LNNvaslhf~~g~~~~A~~~f~~A~~~~~~~~n~d  489 (1018)
T KOG2002|consen  411 PVDSEAWLELAQLLEQTDPWAS-LDAYGNALDILESKGKQIPPEVLNNVASLHFRLGNIEKALEHFKSALGKLLEVANKD  489 (1018)
T ss_pred             cccHHHHHHHHHHHHhcChHHH-HHHHHHHHHHHHHcCCCCCHHHHHhHHHHHHHhcChHHHHHHHHHHhhhhhhhcCcc
Confidence              44455555555444433333 5554433    23344455566666666666666666666666665443   11111


Q ss_pred             h------hhHHHHHHHHHhcCCHHHHHHHHhhhhhcCCc-----------------------------------hhhHHH
Q 039362          230 L------PLQTSLIDMYAKCGAIKEALIVFHGVEKHQSD-----------------------------------VLIWNA  268 (440)
Q Consensus       230 ~------~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-----------------------------------~~~~~~  268 (440)
                      .      .+--.+..++-..++.+.|.+.|..+.+..|.                                   +..++.
T Consensus       490 e~~~~~lt~~YNlarl~E~l~~~~~A~e~Yk~Ilkehp~YId~ylRl~~ma~~k~~~~ea~~~lk~~l~~d~~np~arsl  569 (1018)
T KOG2002|consen  490 EGKSTNLTLKYNLARLLEELHDTEVAEEMYKSILKEHPGYIDAYLRLGCMARDKNNLYEASLLLKDALNIDSSNPNARSL  569 (1018)
T ss_pred             ccccchhHHHHHHHHHHHhhhhhhHHHHHHHHHHHHCchhHHHHHHhhHHHHhccCcHHHHHHHHHHHhcccCCcHHHHH
Confidence            1      12223444444455555555555555544443                                   333333


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHcC-CCccHhhHHHHHHHHHc------------CCChHHHHHHHHHHhhcCCCCCcch
Q 039362          269 MIGGLAMHGFVKESLELFTEMQIVG-ITPDEITFLGLLSACAH------------GGLVMEAWYFFKSLGKRGMVPKSEH  335 (440)
Q Consensus       269 l~~~~~~~~~~~~a~~~~~~m~~~~-~~p~~~~~~~l~~~~~~------------~~~~~~a~~~~~~~~~~~~~~~~~~  335 (440)
                      +...+.....+..|.+-|....+.- ..+|..+...|...|..            .+..++|+++|.++++.. +-|...
T Consensus       570 ~G~~~l~k~~~~~a~k~f~~i~~~~~~~~D~YsliaLGN~~~~~l~~~~rn~ek~kk~~~KAlq~y~kvL~~d-pkN~yA  648 (1018)
T KOG2002|consen  570 LGNLHLKKSEWKPAKKKFETILKKTSTKTDAYSLIALGNVYIQALHNPSRNPEKEKKHQEKALQLYGKVLRND-PKNMYA  648 (1018)
T ss_pred             HHHHHHhhhhhcccccHHHHHHhhhccCCchhHHHHhhHHHHHHhcccccChHHHHHHHHHHHHHHHHHHhcC-cchhhh
Confidence            3334444444444444333332211 12344444444443331            234567777777777653 225566


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHhcC--CCCccHhHHHHHHHHHHhcCChhHHHHHHHHHHhcC--CCCCchHHHHHHHHHh
Q 039362          336 YACMVDALSRAGQVTEAYEFICQM--PLEPTASMLGSLLTGCMNHGKLDLAEIVGKKLVELQ--PDHDGRYVGLSNVYAI  411 (440)
Q Consensus       336 ~~~l~~~~~~~~~~~~a~~~~~~~--~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~--~~~~~~~~~l~~~~~~  411 (440)
                      -|.+.-.++..|++.+|..+|.+.  .......+|..+.++|...|++-.|++.|+...+..  .+++.+...|+.++.+
T Consensus       649 ANGIgiVLA~kg~~~~A~dIFsqVrEa~~~~~dv~lNlah~~~e~~qy~~AIqmYe~~lkkf~~~~~~~vl~~Lara~y~  728 (1018)
T KOG2002|consen  649 ANGIGIVLAEKGRFSEARDIFSQVREATSDFEDVWLNLAHCYVEQGQYRLAIQMYENCLKKFYKKNRSEVLHYLARAWYE  728 (1018)
T ss_pred             ccchhhhhhhccCchHHHHHHHHHHHHHhhCCceeeeHHHHHHHHHHHHHHHHHHHHHHHHhcccCCHHHHHHHHHHHHH
Confidence            666777777788888888888777  222345677778888888888888888888777654  3344567778888888


Q ss_pred             ccChHHHHHHHHHHHhcCC
Q 039362          412 FKRWDEARTTREAMETRGV  430 (440)
Q Consensus       412 ~g~~~~A~~~~~~~~~~~~  430 (440)
                      .|++.+|.+.+.......+
T Consensus       729 ~~~~~eak~~ll~a~~~~p  747 (1018)
T KOG2002|consen  729 AGKLQEAKEALLKARHLAP  747 (1018)
T ss_pred             hhhHHHHHHHHHHHHHhCC
Confidence            8888888777766665543

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

Probab=99.84  E-value=2.2e-17  Score=150.67  Aligned_cols=420  Identities=13%  Similarity=0.043  Sum_probs=272.9

Q ss_pred             ccccccCChhhHHHHhhhcC---CCChHHHHHHHHHHHc---cCChhhHHHHHHHHHHcCCCCCcchHHHHHHHhhchhc
Q 039362            5 SALSYLGNIDYSCKVLSHLS---NPRIFYWNTVIRGYSK---SKNPNKSISLFVKMLRAGVSPDHLTYPFLAKASGRLAK   78 (440)
Q Consensus         5 y~~~~~g~~~~A~~~~~~~~---~~~~~~~~~l~~~~~~---~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~   78 (440)
                      |+-.+.|+.+.|+..|++..   |.++.++-.|...-..   ...+..+..++...-... .-++...+.|...+.-.|+
T Consensus       207 ~Cf~kl~~~~~a~~a~~ralqLdp~~v~alv~L~~~~l~~~d~~s~~~~~~ll~~ay~~n-~~nP~~l~~LAn~fyfK~d  285 (1018)
T KOG2002|consen  207 HCFWKLGMSEKALLAFERALQLDPTCVSALVALGEVDLNFNDSDSYKKGVQLLQRAYKEN-NENPVALNHLANHFYFKKD  285 (1018)
T ss_pred             hHHHhccchhhHHHHHHHHHhcChhhHHHHHHHHHHHHHccchHHHHHHHHHHHHHHhhc-CCCcHHHHHHHHHHhhccc
Confidence            44334599999999999875   3344455444444333   344567777777765542 3577888999999999999


Q ss_pred             HHHHHHHHHHHHHcCCC--CcHHHHHHHHHHHHhcCCHHHHHHHhhCCCCC--c--hhhHHHHHHHHHhcCChHHHHHHH
Q 039362           79 RELAVAVHAQIAKTGYE--SDLFISNSLIHMYGSCGDIVYAREVFDGMPTK--M--SVSWNSMLDGYAKCGEMNMARQVF  152 (440)
Q Consensus        79 ~~~a~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~--~--~~~~~~l~~~~~~~~~~~~a~~~~  152 (440)
                      ++.+..+...+......  .-...|..+.++|-..|++++|...|.+....  +  ...+--+...+.+.|+++.+...|
T Consensus       286 y~~v~~la~~ai~~t~~~~~~aes~Y~~gRs~Ha~Gd~ekA~~yY~~s~k~~~d~~~l~~~GlgQm~i~~~dle~s~~~f  365 (1018)
T KOG2002|consen  286 YERVWHLAEHAIKNTENKSIKAESFYQLGRSYHAQGDFEKAFKYYMESLKADNDNFVLPLVGLGQMYIKRGDLEESKFCF  365 (1018)
T ss_pred             HHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHccCCCCccccccchhHHHHHhchHHHHHHHH
Confidence            99999999999876422  12345788999999999999999999877653  2  234556788999999999999999


Q ss_pred             hhCCC--C-chhhHHHHHHHHHhcC----CHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHH----
Q 039362          153 ELMPE--R-NVVSWSALIDGYVKCG----DYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYM----  221 (440)
Q Consensus       153 ~~~~~--~-~~~~~~~l~~~~~~~~----~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~----  221 (440)
                      +.+.+  | +..+...+...|...+    ..+.|..++.+....- +.|...|..+...+.. +++..+..+|..+    
T Consensus       366 Ekv~k~~p~~~etm~iLG~Lya~~~~~~~~~d~a~~~l~K~~~~~-~~d~~a~l~laql~e~-~d~~~sL~~~~~A~d~L  443 (1018)
T KOG2002|consen  366 EKVLKQLPNNYETMKILGCLYAHSAKKQEKRDKASNVLGKVLEQT-PVDSEAWLELAQLLEQ-TDPWASLDAYGNALDIL  443 (1018)
T ss_pred             HHHHHhCcchHHHHHHHHhHHHhhhhhhHHHHHHHHHHHHHHhcc-cccHHHHHHHHHHHHh-cChHHHHHHHHHHHHHH
Confidence            99876  3 4567777777777664    5677888888776653 5567777777766654 4444446666554    


Q ss_pred             HHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhc-----CCch------hhHHHHHHHHHhcCChHHHHHHHHHHH
Q 039362          222 IDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKH-----QSDV------LIWNAMIGGLAMHGFVKESLELFTEMQ  290 (440)
Q Consensus       222 ~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-----~~~~------~~~~~l~~~~~~~~~~~~a~~~~~~m~  290 (440)
                      ...+.++.+...|.+...+...|++++|...|......     .++.      .+--.+...+-..++++.|.+.|..+.
T Consensus       444 ~~~~~~ip~E~LNNvaslhf~~g~~~~A~~~f~~A~~~~~~~~n~de~~~~~lt~~YNlarl~E~l~~~~~A~e~Yk~Il  523 (1018)
T KOG2002|consen  444 ESKGKQIPPEVLNNVASLHFRLGNIEKALEHFKSALGKLLEVANKDEGKSTNLTLKYNLARLLEELHDTEVAEEMYKSIL  523 (1018)
T ss_pred             HHcCCCCCHHHHHhHHHHHHHhcChHHHHHHHHHHhhhhhhhcCccccccchhHHHHHHHHHHHhhhhhhHHHHHHHHHH
Confidence            45566688899999999999999999999999987654     2222      122334445556677788888887777


Q ss_pred             HcCCCccHh-hHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHh----cCCCCccH
Q 039362          291 IVGITPDEI-TFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFIC----QMPLEPTA  365 (440)
Q Consensus       291 ~~~~~p~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~----~~~~~p~~  365 (440)
                      ..  .|+-. .|.-++......++..+|...++...... ..++..+..+...+.+...+.-|.+-|+    +....+|.
T Consensus       524 ke--hp~YId~ylRl~~ma~~k~~~~ea~~~lk~~l~~d-~~np~arsl~G~~~l~k~~~~~a~k~f~~i~~~~~~~~D~  600 (1018)
T KOG2002|consen  524 KE--HPGYIDAYLRLGCMARDKNNLYEASLLLKDALNID-SSNPNARSLLGNLHLKKSEWKPAKKKFETILKKTSTKTDA  600 (1018)
T ss_pred             HH--CchhHHHHHHhhHHHHhccCcHHHHHHHHHHHhcc-cCCcHHHHHHHHHHHhhhhhcccccHHHHHHhhhccCCch
Confidence            65  34432 33333322223455666666666665542 2233444445555555555555555332    22223444


Q ss_pred             hHHHHHHHHHHh------------cCChhHHHHHHHHHHhcCCCCCchHHHHHHHHHhccChHHHHHHHHHHHhcCC
Q 039362          366 SMLGSLLTGCMN------------HGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEARTTREAMETRGV  430 (440)
Q Consensus       366 ~~~~~l~~~~~~------------~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  430 (440)
                      .+...|...|.+            .+..++|+++|.++++.+|.|..+-+.++.+++..|++.+|+.+|.++.+...
T Consensus       601 YsliaLGN~~~~~l~~~~rn~ek~kk~~~KAlq~y~kvL~~dpkN~yAANGIgiVLA~kg~~~~A~dIFsqVrEa~~  677 (1018)
T KOG2002|consen  601 YSLIALGNVYIQALHNPSRNPEKEKKHQEKALQLYGKVLRNDPKNMYAANGIGIVLAEKGRFSEARDIFSQVREATS  677 (1018)
T ss_pred             hHHHHhhHHHHHHhcccccChHHHHHHHHHHHHHHHHHHhcCcchhhhccchhhhhhhccCchHHHHHHHHHHHHHh
Confidence            444444443321            23345566666666666666655556666666666666666666666655443

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

Probab=99.82  E-value=2.8e-17  Score=138.05  Aligned_cols=272  Identities=13%  Similarity=0.117  Sum_probs=195.8

Q ss_pred             HHhcCChHHHHHHHhhCCCCchhhH----HHHHHH-HHh-cCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChH
Q 039362          139 YAKCGEMNMARQVFELMPERNVVSW----SALIDG-YVK-CGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALD  212 (440)
Q Consensus       139 ~~~~~~~~~a~~~~~~~~~~~~~~~----~~l~~~-~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  212 (440)
                      +.+.|+++.|+++++-..+.|..+-    +.|-.. |.+ ..++..|.+.-+...... .-+......-.......|+++
T Consensus       429 ~lk~~d~~~aieilkv~~~kdnk~~saaa~nl~~l~flqggk~~~~aqqyad~aln~d-ryn~~a~~nkgn~~f~ngd~d  507 (840)
T KOG2003|consen  429 LLKNGDIEGAIEILKVFEKKDNKTASAAANNLCALRFLQGGKDFADAQQYADIALNID-RYNAAALTNKGNIAFANGDLD  507 (840)
T ss_pred             HHhccCHHHHHHHHHHHHhccchhhHHHhhhhHHHHHHhcccchhHHHHHHHHHhccc-ccCHHHhhcCCceeeecCcHH
Confidence            3566666666666666555433221    111111 111 224555555544443322 222222222223334568999


Q ss_pred             HHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhc-CCchhhHHHHHHHHHhcCChHHHHHHHHHHHH
Q 039362          213 QGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKH-QSDVLIWNAMIGGLAMHGFVKESLELFTEMQI  291 (440)
Q Consensus       213 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~  291 (440)
                      +|.+.+++.+...-.-....| .+.-.+-..|++++|+++|-++... ..+..+.-.+...|-...+...|++++.+...
T Consensus       508 ka~~~ykeal~ndasc~ealf-niglt~e~~~~ldeald~f~klh~il~nn~evl~qianiye~led~aqaie~~~q~~s  586 (840)
T KOG2003|consen  508 KAAEFYKEALNNDASCTEALF-NIGLTAEALGNLDEALDCFLKLHAILLNNAEVLVQIANIYELLEDPAQAIELLMQANS  586 (840)
T ss_pred             HHHHHHHHHHcCchHHHHHHH-HhcccHHHhcCHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhhCHHHHHHHHHHhcc
Confidence            999999998866533333333 3445577889999999999888755 44667777888899999999999999988765


Q ss_pred             cCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcC-CCCccHhHHHH
Q 039362          292 VGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQM-PLEPTASMLGS  370 (440)
Q Consensus       292 ~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p~~~~~~~  370 (440)
                      . ++.|+..+..|...|-+.|+-.+|.+.+-.--+ -++-+..+...|...|....-+++++.+|++. -++|+..-|..
T Consensus       587 l-ip~dp~ilskl~dlydqegdksqafq~~ydsyr-yfp~nie~iewl~ayyidtqf~ekai~y~ekaaliqp~~~kwql  664 (840)
T KOG2003|consen  587 L-IPNDPAILSKLADLYDQEGDKSQAFQCHYDSYR-YFPCNIETIEWLAAYYIDTQFSEKAINYFEKAALIQPNQSKWQL  664 (840)
T ss_pred             c-CCCCHHHHHHHHHHhhcccchhhhhhhhhhccc-ccCcchHHHHHHHHHHHhhHHHHHHHHHHHHHHhcCccHHHHHH
Confidence            4 566788999999999999999999887665443 24457888888999999999999999999998 68999999998


Q ss_pred             HHHHHH-hcCChhHHHHHHHHHHhcCCCCCchHHHHHHHHHhccC
Q 039362          371 LLTGCM-NHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKR  414 (440)
Q Consensus       371 l~~~~~-~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  414 (440)
                      ++..|. +.|++.+|..+|+...+..|.+...+..|+..+...|-
T Consensus       665 miasc~rrsgnyqka~d~yk~~hrkfpedldclkflvri~~dlgl  709 (840)
T KOG2003|consen  665 MIASCFRRSGNYQKAFDLYKDIHRKFPEDLDCLKFLVRIAGDLGL  709 (840)
T ss_pred             HHHHHHHhcccHHHHHHHHHHHHHhCccchHHHHHHHHHhccccc
Confidence            887765 68999999999999999999999999999998877773

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

Probab=99.82  E-value=2.9e-16  Score=133.01  Aligned_cols=388  Identities=16%  Similarity=0.088  Sum_probs=267.0

Q ss_pred             HHHHHHHHHHccCChhhHHHHHHHHHHcCCCCC-cchHHHHHHHhhchhcHHHHHHHHHHHHHcCCCCcHHHHHHHHHHH
Q 039362           30 YWNTVIRGYSKSKNPNKSISLFVKMLRAGVSPD-HLTYPFLAKASGRLAKRELAVAVHAQIAKTGYESDLFISNSLIHMY  108 (440)
Q Consensus        30 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  108 (440)
                      .+-...+-|.++|++++|++.|.+.+.  ..|| +..|.....+|...|+++++.+--...++.++. -+..+..-..++
T Consensus       117 ~lK~~GN~~f~~kkY~eAIkyY~~AI~--l~p~epiFYsNraAcY~~lgd~~~Vied~TkALEl~P~-Y~KAl~RRA~A~  193 (606)
T KOG0547|consen  117 ALKTKGNKFFRNKKYDEAIKYYTQAIE--LCPDEPIFYSNRAACYESLGDWEKVIEDCTKALELNPD-YVKALLRRASAH  193 (606)
T ss_pred             HHHhhhhhhhhcccHHHHHHHHHHHHh--cCCCCchhhhhHHHHHHHHhhHHHHHHHHHHHhhcCcH-HHHHHHHHHHHH
Confidence            455667789999999999999999998  4688 788999999999999999999888777775432 244666677788


Q ss_pred             HhcCCHHHHHHH------hhCCCCCchhhHHHHHHHHHhcCChHHHHHHHhhCCC---Cchh------------------
Q 039362          109 GSCGDIVYAREV------FDGMPTKMSVSWNSMLDGYAKCGEMNMARQVFELMPE---RNVV------------------  161 (440)
Q Consensus       109 ~~~g~~~~a~~~------~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~------------------  161 (440)
                      -..|++++|+.=      ++.......   ..++.-..+.--..++.+-+..-..   |+..                  
T Consensus       194 E~lg~~~eal~D~tv~ci~~~F~n~s~---~~~~eR~Lkk~a~~ka~e~~k~nr~p~lPS~~fi~syf~sF~~~~~~~~~  270 (606)
T KOG0547|consen  194 EQLGKFDEALFDVTVLCILEGFQNASI---EPMAERVLKKQAMKKAKEKLKENRPPVLPSATFIASYFGSFHADPKPLFD  270 (606)
T ss_pred             HhhccHHHHHHhhhHHHHhhhcccchh---HHHHHHHHHHHHHHHHHHhhcccCCCCCCcHHHHHHHHhhcccccccccc
Confidence            888988887542      222211111   1111111111111222222221000   1111                  


Q ss_pred             -----hHHHHHHHHHh--c---CCHHHHHHHHHHHHhc-CCCC-----CHH------HHHHHHHHHHhcCChHHHHHHHH
Q 039362          162 -----SWSALIDGYVK--C---GDYKEALVIFEEMRDV-GSKA-----NEV------TLVSVLCACAHLGALDQGRMMLR  219 (440)
Q Consensus       162 -----~~~~l~~~~~~--~---~~~~~a~~~~~~~~~~-~~~~-----~~~------~~~~l~~~~~~~~~~~~a~~~~~  219 (440)
                           ....+..++..  .   ..+..|...+.+-... ...+     |..      +.......+.-.|+.-.+..-|+
T Consensus       271 ~~~~ksDa~l~~~l~~l~~~~~e~Y~~a~~~~te~~~~~~~~~~~n~~d~~le~~A~al~~~gtF~fL~g~~~~a~~d~~  350 (606)
T KOG0547|consen  271 NKSDKSDAALAEALEALEKGLEEGYLKAYDKATEECLGSESSLSVNEIDAELEYMAEALLLRGTFHFLKGDSLGAQEDFD  350 (606)
T ss_pred             CCCccchhhHHHHHHHHHhhCchhHHHHHHHHHHHhhhhhhhccccccchhHHHHHHHHHHhhhhhhhcCCchhhhhhHH
Confidence                 11122211111  1   1344444443332111 0011     111      11111122344578889999999


Q ss_pred             HHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCC-chhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccH
Q 039362          220 YMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQS-DVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDE  298 (440)
Q Consensus       220 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~  298 (440)
                      ...+.. +.+...|..+..+|....+.++-...|.......| ++.+|..-.+.+.-.+++++|..=|++.+... +-+.
T Consensus       351 ~~I~l~-~~~~~lyI~~a~~y~d~~~~~~~~~~F~~A~~ldp~n~dvYyHRgQm~flL~q~e~A~aDF~Kai~L~-pe~~  428 (606)
T KOG0547|consen  351 AAIKLD-PAFNSLYIKRAAAYADENQSEKMWKDFNKAEDLDPENPDVYYHRGQMRFLLQQYEEAIADFQKAISLD-PENA  428 (606)
T ss_pred             HHHhcC-cccchHHHHHHHHHhhhhccHHHHHHHHHHHhcCCCCCchhHhHHHHHHHHHHHHHHHHHHHHHhhcC-hhhh
Confidence            998876 44444588888999999999999999999998876 67888888888888999999999999988753 3345


Q ss_pred             hhHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcC-CCCcc-------Hh--HH
Q 039362          299 ITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQM-PLEPT-------AS--ML  368 (440)
Q Consensus       299 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p~-------~~--~~  368 (440)
                      ..|..+.-+..+.+.+++++..|++.++. ++..+.+|+.....+...++++.|.+.|+.. .+.|+       ..  +-
T Consensus       429 ~~~iQl~~a~Yr~~k~~~~m~~Fee~kkk-FP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~LE~~~~~~~v~~~plV~  507 (606)
T KOG0547|consen  429 YAYIQLCCALYRQHKIAESMKTFEEAKKK-FPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIELEPREHLIIVNAAPLVH  507 (606)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHhhccccccccccchhhhh
Confidence            56777777777889999999999999885 4557789999999999999999999999987 44554       11  11


Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHhcCCCCCchHHHHHHHHHhccChHHHHHHHHHHHh
Q 039362          369 GSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEARTTREAMET  427 (440)
Q Consensus       369 ~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  427 (440)
                      ..++. +.-.+++..|..+++++++++|....++.+|+..-.+.|+.++|+++|++...
T Consensus       508 Ka~l~-~qwk~d~~~a~~Ll~KA~e~Dpkce~A~~tlaq~~lQ~~~i~eAielFEksa~  565 (606)
T KOG0547|consen  508 KALLV-LQWKEDINQAENLLRKAIELDPKCEQAYETLAQFELQRGKIDEAIELFEKSAQ  565 (606)
T ss_pred             hhHhh-hchhhhHHHHHHHHHHHHccCchHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            12222 22358999999999999999999999999999999999999999999988654

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.80  E-value=1.2e-15  Score=127.36  Aligned_cols=353  Identities=13%  Similarity=0.090  Sum_probs=197.5

Q ss_pred             HhhhcCCCChHHHHHHHHHHHccCChhhHHHHHHHHHHcCCCCCcchHHHHHHHhhchhcHHHHHHHHHHHHHcCCCCcH
Q 039362           19 VLSHLSNPRIFYWNTVIRGYSKSKNPNKSISLFVKMLRAGVSPDHLTYPFLAKASGRLAKRELAVAVHAQIAKTGYESDL   98 (440)
Q Consensus        19 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~   98 (440)
                      ++-+..+.+..++..||.++++--..++|.+++++......+.+..+||.+|.+-.-    ....+++.+|......||.
T Consensus       198 L~~E~~PKT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~----~~~K~Lv~EMisqkm~Pnl  273 (625)
T KOG4422|consen  198 LLFETLPKTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSY----SVGKKLVAEMISQKMTPNL  273 (625)
T ss_pred             HHHhhcCCCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHh----hccHHHHHHHHHhhcCCch
Confidence            444555566778888888888888888888888887777677788888888766432    2236777788887788888


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHhhCCCCchhhHHHHHHHHHhcCCHHH
Q 039362           99 FISNSLIHMYGSCGDIVYAREVFDGMPTKMSVSWNSMLDGYAKCGEMNMARQVFELMPERNVVSWSALIDGYVKCGDYKE  178 (440)
Q Consensus        99 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  178 (440)
                      .|+|+++.+..+.|+++.|...                                                          
T Consensus       274 ~TfNalL~c~akfg~F~~ar~a----------------------------------------------------------  295 (625)
T KOG4422|consen  274 FTFNALLSCAAKFGKFEDARKA----------------------------------------------------------  295 (625)
T ss_pred             HhHHHHHHHHHHhcchHHHHHH----------------------------------------------------------
Confidence            8888888888877777665432                                                          


Q ss_pred             HHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHH-HHHHHHHHHHc----CC----CCchhhHHHHHHHHHhcCCHHHH
Q 039362          179 ALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQ-GRMMLRYMIDK----GL----SLTLPLQTSLIDMYAKCGAIKEA  249 (440)
Q Consensus       179 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~-a~~~~~~~~~~----~~----~~~~~~~~~l~~~~~~~g~~~~A  249 (440)
                      |.+++.+|++.|+.|...+|..+|..+++.++..+ +..++..+...    .+    +.+...|...+..+.+..+.+-|
T Consensus       296 alqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~as~~i~dI~N~ltGK~fkp~~p~d~~FF~~AM~Ic~~l~d~~LA  375 (625)
T KOG4422|consen  296 ALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVASSWINDIQNSLTGKTFKPITPTDNKFFQSAMSICSSLRDLELA  375 (625)
T ss_pred             HHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhhHHHHHHHHHhhccCcccCCCCchhHHHHHHHHHHHHhhhHHHH
Confidence            33444455555555555555555555554444432 22222222211    11    11222333344444444444444


Q ss_pred             HHHHhhhhhc------CCc---hhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHH
Q 039362          250 LIVFHGVEKH------QSD---VLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYF  320 (440)
Q Consensus       250 ~~~~~~~~~~------~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~  320 (440)
                      ..+-.-....      +|+   ..-|..+....++....+.....++.|...-.-|+..+...++++..-.|.++-..++
T Consensus       376 ~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~licq~es~~~~~~~Y~~lVP~~y~p~~~~m~~~lrA~~v~~~~e~ipRi  455 (625)
T KOG4422|consen  376 YQVHGLLKTGDNWKFIGPDQHRNFYYRKFFDLICQMESIDVTLKWYEDLVPSAYFPHSQTMIHLLRALDVANRLEVIPRI  455 (625)
T ss_pred             HHHHHHHHcCCchhhcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccceecCCchhHHHHHHHHhhcCcchhHHHH
Confidence            4433332211      111   1223444444555555555555555555554555555555555555555555555555


Q ss_pred             HHHHhhcCCCCCcchHHHHHHHHHhcC-CH--------H-----HHHHHH-------hcC-CCCccHhHHHHHHHHHHhc
Q 039362          321 FKSLGKRGMVPKSEHYACMVDALSRAG-QV--------T-----EAYEFI-------CQM-PLEPTASMLGSLLTGCMNH  378 (440)
Q Consensus       321 ~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~--------~-----~a~~~~-------~~~-~~~p~~~~~~~l~~~~~~~  378 (440)
                      |..++..|..........+...+++.. +.        .     -|..++       .++ ..+......+..+..+.+.
T Consensus       456 w~D~~~~ght~r~~l~eeil~~L~~~k~hp~tp~r~Ql~~~~ak~aad~~e~~e~~~~R~r~~~~~~t~l~~ia~Ll~R~  535 (625)
T KOG4422|consen  456 WKDSKEYGHTFRSDLREEILMLLARDKLHPLTPEREQLQVAFAKCAADIKEAYESQPIRQRAQDWPATSLNCIAILLLRA  535 (625)
T ss_pred             HHHHHHhhhhhhHHHHHHHHHHHhcCCCCCCChHHHHHHHHHHHHHHHHHHHHHhhHHHHHhccCChhHHHHHHHHHHHc
Confidence            555554443333333222333333222 00        0     011111       111 2334455667777778899


Q ss_pred             CChhHHHHHHHHHHhcC---CCCCc--hHHHHHHHHHhccChHHHHHHHHHHHhcCCccC
Q 039362          379 GKLDLAEIVGKKLVELQ---PDHDG--RYVGLSNVYAIFKRWDEARTTREAMETRGVKKY  433 (440)
Q Consensus       379 g~~~~a~~~~~~~~~~~---~~~~~--~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~  433 (440)
                      |..++|-+++....+.+   |..|.  +..-+.+.-.+.++...|..+++-|...+.++.
T Consensus       536 G~~qkA~e~l~l~~~~~~~ip~~p~lnAm~El~d~a~~~~spsqA~~~lQ~a~~~n~~~~  595 (625)
T KOG4422|consen  536 GRTQKAWEMLGLFLRKHNKIPRSPLLNAMAELMDSAKVSNSPSQAIEVLQLASAFNLPIC  595 (625)
T ss_pred             chHHHHHHHHHHHHhcCCcCCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCchhh
Confidence            99999999999886544   33332  334566666777888899999988887766543

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

Probab=99.80  E-value=2.2e-19  Score=153.37  Aligned_cols=259  Identities=16%  Similarity=0.130  Sum_probs=114.1

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhcCCCCCH-HHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhc
Q 039362          165 ALIDGYVKCGDYKEALVIFEEMRDVGSKANE-VTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKC  243 (440)
Q Consensus       165 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  243 (440)
                      .+...+.+.|++++|++++++......+|+. ..+..+...+...++++.|...++++...+ +.++..+..++.. ...
T Consensus        13 ~~A~~~~~~~~~~~Al~~L~~~~~~~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~-~~~~~~~~~l~~l-~~~   90 (280)
T PF13429_consen   13 RLARLLYQRGDYEKALEVLKKAAQKIAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASD-KANPQDYERLIQL-LQD   90 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc-ccccccccccccc-ccc
Confidence            4577888899999999999765544323444 344445556677899999999999998876 4466777778877 789


Q ss_pred             CCHHHHHHHHhhhhhcCCchhhHHHHHHHHHhcCChHHHHHHHHHHHHcC-CCccHhhHHHHHHHHHcCCChHHHHHHHH
Q 039362          244 GAIKEALIVFHGVEKHQSDVLIWNAMIGGLAMHGFVKESLELFTEMQIVG-ITPDEITFLGLLSACAHGGLVMEAWYFFK  322 (440)
Q Consensus       244 g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~-~~p~~~~~~~l~~~~~~~~~~~~a~~~~~  322 (440)
                      +++++|..++...-+..++...+..++..+.+.++++++.++++.+.... .+++...|..+...+.+.|+.++|+..++
T Consensus        91 ~~~~~A~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~  170 (280)
T PF13429_consen   91 GDPEEALKLAEKAYERDGDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRDYR  170 (280)
T ss_dssp             ---------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHHHH
T ss_pred             ccccccccccccccccccccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            99999999998876666777888889999999999999999999987543 34566778888889999999999999999


Q ss_pred             HHhhcCCCC-CcchHHHHHHHHHhcCCHHHHHHHHhcC--CCCccHhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCC
Q 039362          323 SLGKRGMVP-KSEHYACMVDALSRAGQVTEAYEFICQM--PLEPTASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHD  399 (440)
Q Consensus       323 ~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~--~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~  399 (440)
                      +..+..  | |......++..+...|+.+++.++++..  ....++..+..+..++...|++++|...++++.+.+|.|+
T Consensus       171 ~al~~~--P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~p~d~  248 (280)
T PF13429_consen  171 KALELD--PDDPDARNALAWLLIDMGDYDEAREALKRLLKAAPDDPDLWDALAAAYLQLGRYEEALEYLEKALKLNPDDP  248 (280)
T ss_dssp             HHHHH---TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH-HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHSTT-H
T ss_pred             HHHHcC--CCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHCcCHHHHHHHHHHHhcccccccccccccccccccccccc
Confidence            999964  5 5677888999999999999988888877  2245667888999999999999999999999999999999


Q ss_pred             chHHHHHHHHHhccChHHHHHHHHHHHh
Q 039362          400 GRYVGLSNVYAIFKRWDEARTTREAMET  427 (440)
Q Consensus       400 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~  427 (440)
                      .+...++.++...|+.++|.++.+++.+
T Consensus       249 ~~~~~~a~~l~~~g~~~~A~~~~~~~~~  276 (280)
T PF13429_consen  249 LWLLAYADALEQAGRKDEALRLRRQALR  276 (280)
T ss_dssp             HHHHHHHHHHT-----------------
T ss_pred             cccccccccccccccccccccccccccc
Confidence            9999999999999999999999887654

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

Probab=99.79  E-value=7.4e-15  Score=128.93  Aligned_cols=420  Identities=14%  Similarity=0.069  Sum_probs=230.7

Q ss_pred             CChhhHHHHhhhc---CCCChHHHHHHHHHHHccCChhhHHHHHHHH----HHcCCCCCcchHHHHHHHhhchhcHHHHH
Q 039362           11 GNIDYSCKVLSHL---SNPRIFYWNTVIRGYSKSKNPNKSISLFVKM----LRAGVSPDHLTYPFLAKASGRLAKRELAV   83 (440)
Q Consensus        11 g~~~~A~~~~~~~---~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~----~~~~~~~~~~~~~~l~~~~~~~~~~~~a~   83 (440)
                      --++.|..++.+.   .+.+...|.+-...--.+|+.+...+++.+.    ...|+..+...|..=...|-..|..-.+.
T Consensus       420 etYenAkkvLNkaRe~iptd~~IWitaa~LEE~ngn~~mv~kii~rgl~~L~~ngv~i~rdqWl~eAe~~e~agsv~TcQ  499 (913)
T KOG0495|consen  420 ETYENAKKVLNKAREIIPTDREIWITAAKLEEANGNVDMVEKIIDRGLSELQANGVEINRDQWLKEAEACEDAGSVITCQ  499 (913)
T ss_pred             HHHHHHHHHHHHHHhhCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhcceeecHHHHHHHHHHHhhcCChhhHH
Confidence            4455555555433   2445555555555555566666655555542    23355555555555555555555555555


Q ss_pred             HHHHHHHHcCCCCc--HHHHHHHHHHHHhcCCHHHHHHHhhCCCC---CchhhHHHHHHHHHhcCChHHHHHHHhhCCC-
Q 039362           84 AVHAQIAKTGYESD--LFISNSLIHMYGSCGDIVYAREVFDGMPT---KMSVSWNSMLDGYAKCGEMNMARQVFELMPE-  157 (440)
Q Consensus        84 ~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-  157 (440)
                      .+....+..|+...  ..++..-...|.+.+.++-|..+|....+   .+...|......--..|..+....+|++... 
T Consensus       500 AIi~avigigvEeed~~~tw~~da~~~~k~~~~~carAVya~alqvfp~k~slWlra~~~ek~hgt~Esl~Allqkav~~  579 (913)
T KOG0495|consen  500 AIIRAVIGIGVEEEDRKSTWLDDAQSCEKRPAIECARAVYAHALQVFPCKKSLWLRAAMFEKSHGTRESLEALLQKAVEQ  579 (913)
T ss_pred             HHHHHHHhhccccchhHhHHhhhHHHHHhcchHHHHHHHHHHHHhhccchhHHHHHHHHHHHhcCcHHHHHHHHHHHHHh
Confidence            55555555443311  23455555555566666666665554443   1223343333333344445555555544432 


Q ss_pred             -C-chhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHH
Q 039362          158 -R-NVVSWSALIDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTS  235 (440)
Q Consensus       158 -~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  235 (440)
                       | ....|-..+..+...|+...|..++....+.. +.+...+...+..-.....++.|..+|.+....  .++..+|..
T Consensus       580 ~pkae~lwlM~ake~w~agdv~~ar~il~~af~~~-pnseeiwlaavKle~en~e~eraR~llakar~~--sgTeRv~mK  656 (913)
T KOG0495|consen  580 CPKAEILWLMYAKEKWKAGDVPAARVILDQAFEAN-PNSEEIWLAAVKLEFENDELERARDLLAKARSI--SGTERVWMK  656 (913)
T ss_pred             CCcchhHHHHHHHHHHhcCCcHHHHHHHHHHHHhC-CCcHHHHHHHHHHhhccccHHHHHHHHHHHhcc--CCcchhhHH
Confidence             1 22334444444555566666666655555443 224445555555555555556666555555432  345555555


Q ss_pred             HHHHHHhcCCHHHHHHHHhhhhhcCCc-hhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccH-hhHHHHHHHHHcCCC
Q 039362          236 LIDMYAKCGAIKEALIVFHGVEKHQSD-VLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDE-ITFLGLLSACAHGGL  313 (440)
Q Consensus       236 l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~-~~~~~l~~~~~~~~~  313 (440)
                      -+....-.++.++|++++++..+..|+ .-.|..+.+.+-+.++.+.|.+.|..-.+.  -|+. ..|..|...=.+.|.
T Consensus       657 s~~~er~ld~~eeA~rllEe~lk~fp~f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k~--cP~~ipLWllLakleEk~~~  734 (913)
T KOG0495|consen  657 SANLERYLDNVEEALRLLEEALKSFPDFHKLWLMLGQIEEQMENIEMAREAYLQGTKK--CPNSIPLWLLLAKLEEKDGQ  734 (913)
T ss_pred             HhHHHHHhhhHHHHHHHHHHHHHhCCchHHHHHHHhHHHHHHHHHHHHHHHHHhcccc--CCCCchHHHHHHHHHHHhcc
Confidence            555555555555666555555555554 234444455555555555555555443322  2332 233333333344455


Q ss_pred             hHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcC-------C-------------------------C
Q 039362          314 VMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQM-------P-------------------------L  361 (440)
Q Consensus       314 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-------~-------------------------~  361 (440)
                      +-.|..++++..-.+ +-+...|...|+.-.+.|..+.|..++.++       +                         .
T Consensus       735 ~~rAR~ildrarlkN-Pk~~~lwle~Ir~ElR~gn~~~a~~lmakALQecp~sg~LWaEaI~le~~~~rkTks~DALkkc  813 (913)
T KOG0495|consen  735 LVRARSILDRARLKN-PKNALLWLESIRMELRAGNKEQAELLMAKALQECPSSGLLWAEAIWLEPRPQRKTKSIDALKKC  813 (913)
T ss_pred             hhhHHHHHHHHHhcC-CCcchhHHHHHHHHHHcCCHHHHHHHHHHHHHhCCccchhHHHHHHhccCcccchHHHHHHHhc
Confidence            556666665555443 124455555555555666655555444332       0                         2


Q ss_pred             CccHhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCCchHHHHHHHHHhccChHHHHHHHHHHHhcCCccCCCCCC
Q 039362          362 EPTASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEARTTREAMETRGVKKYPGWSF  438 (440)
Q Consensus       362 ~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~  438 (440)
                      .-|+.+...+...+....++++|.+.|++++..+|++..+|..+...+.+.|.-++-.+++++.....  |.-|..|
T Consensus       814 e~dphVllaia~lfw~e~k~~kar~Wf~Ravk~d~d~GD~wa~fykfel~hG~eed~kev~~~c~~~E--P~hG~~W  888 (913)
T KOG0495|consen  814 EHDPHVLLAIAKLFWSEKKIEKAREWFERAVKKDPDNGDAWAWFYKFELRHGTEEDQKEVLKKCETAE--PTHGELW  888 (913)
T ss_pred             cCCchhHHHHHHHHHHHHHHHHHHHHHHHHHccCCccchHHHHHHHHHHHhCCHHHHHHHHHHHhccC--CCCCcHH
Confidence            23555666777778888899999999999999999999999999999999999999889988876643  3444444

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

Probab=99.79  E-value=2.3e-14  Score=121.31  Aligned_cols=410  Identities=12%  Similarity=0.080  Sum_probs=308.2

Q ss_pred             CChhhHHHHhhhcC---CCChHHHHHHHHHHHccCChhhHHHHHHHHHHcCCCCCc-chHHHHHHHhhchhcHHHHHHHH
Q 039362           11 GNIDYSCKVLSHLS---NPRIFYWNTVIRGYSKSKNPNKSISLFVKMLRAGVSPDH-LTYPFLAKASGRLAKRELAVAVH   86 (440)
Q Consensus        11 g~~~~A~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~   86 (440)
                      +++..|+++|++..   ..++..|...+..-.++.+...|..++++....  -|-+ ..|-..+..--..|++..|.++|
T Consensus        87 ~e~~RARSv~ERALdvd~r~itLWlkYae~Emknk~vNhARNv~dRAvt~--lPRVdqlWyKY~ymEE~LgNi~gaRqif  164 (677)
T KOG1915|consen   87 KEIQRARSVFERALDVDYRNITLWLKYAEFEMKNKQVNHARNVWDRAVTI--LPRVDQLWYKYIYMEEMLGNIAGARQIF  164 (677)
T ss_pred             HHHHHHHHHHHHHHhcccccchHHHHHHHHHHhhhhHhHHHHHHHHHHHh--cchHHHHHHHHHHHHHHhcccHHHHHHH
Confidence            67788999999865   567778999999999999999999999998874  3432 33444455556679999999999


Q ss_pred             HHHHHcCCCCcHHHHHHHHHHHHhcCCHHHHHHHhhCCC--CCchhhHHHHHHHHHhcCChHHHHHHHhhCCC------C
Q 039362           87 AQIAKTGYESDLFISNSLIHMYGSCGDIVYAREVFDGMP--TKMSVSWNSMLDGYAKCGEMNMARQVFELMPE------R  158 (440)
Q Consensus        87 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~------~  158 (440)
                      +...+  ..|+...+.+.|..-.+-..++.|..+++...  .|+..+|.-...-=.+.|....|..+|+...+      .
T Consensus       165 erW~~--w~P~eqaW~sfI~fElRykeieraR~IYerfV~~HP~v~~wikyarFE~k~g~~~~aR~VyerAie~~~~d~~  242 (677)
T KOG1915|consen  165 ERWME--WEPDEQAWLSFIKFELRYKEIERARSIYERFVLVHPKVSNWIKYARFEEKHGNVALARSVYERAIEFLGDDEE  242 (677)
T ss_pred             HHHHc--CCCcHHHHHHHHHHHHHhhHHHHHHHHHHHHheecccHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHhhhHHH
Confidence            99877  57899999999999999999999999999864  68888888888888899999999999988775      1


Q ss_pred             chhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCC--HHHHHHHHHHHHhcCChHHHHH--------HHHHHHHcCCCC
Q 039362          159 NVVSWSALIDGYVKCGDYKEALVIFEEMRDVGSKAN--EVTLVSVLCACAHLGALDQGRM--------MLRYMIDKGLSL  228 (440)
Q Consensus       159 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~--------~~~~~~~~~~~~  228 (440)
                      +...+.+.+.--.++..++.|.-+|+-.++. ++.+  ...|......=-+-|+......        -++.+++.+ +.
T Consensus       243 ~e~lfvaFA~fEe~qkE~ERar~iykyAld~-~pk~raeeL~k~~~~fEKqfGd~~gIEd~Iv~KRk~qYE~~v~~n-p~  320 (677)
T KOG1915|consen  243 AEILFVAFAEFEERQKEYERARFIYKYALDH-IPKGRAEELYKKYTAFEKQFGDKEGIEDAIVGKRKFQYEKEVSKN-PY  320 (677)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-cCcccHHHHHHHHHHHHHHhcchhhhHHHHhhhhhhHHHHHHHhC-CC
Confidence            3345666666566777888898888887765 2323  3344444433334454433322        245555555 67


Q ss_pred             chhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCCch---hhHHHHH--------HHHHhcCChHHHHHHHHHHHHcCCCcc
Q 039362          229 TLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQSDV---LIWNAMI--------GGLAMHGFVKESLELFTEMQIVGITPD  297 (440)
Q Consensus       229 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~---~~~~~l~--------~~~~~~~~~~~a~~~~~~m~~~~~~p~  297 (440)
                      |-.+|-..+..-...|+.+...++|+++....|..   ..|...|        -.-....+.+.+.++++...+. ++-.
T Consensus       321 nYDsWfdylrL~e~~g~~~~Ire~yErAIanvpp~~ekr~W~RYIYLWinYalyeEle~ed~ertr~vyq~~l~l-IPHk  399 (677)
T KOG1915|consen  321 NYDSWFDYLRLEESVGDKDRIRETYERAIANVPPASEKRYWRRYIYLWINYALYEELEAEDVERTRQVYQACLDL-IPHK  399 (677)
T ss_pred             CchHHHHHHHHHHhcCCHHHHHHHHHHHHccCCchhHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhh-cCcc
Confidence            77788888888888899999999999987654422   1222222        1123467889999999998873 4445


Q ss_pred             HhhHHHHHHHH----HcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcC-CCCc-cHhHHHHH
Q 039362          298 EITFLGLLSAC----AHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQM-PLEP-TASMLGSL  371 (440)
Q Consensus       298 ~~~~~~l~~~~----~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l  371 (440)
                      ..||..+--.|    .++.++..|.+++..++.  ..|...+|...|..-.+.+.++.+..++++. ...| +..+|...
T Consensus       400 kFtFaKiWlmyA~feIRq~~l~~ARkiLG~AIG--~cPK~KlFk~YIelElqL~efDRcRkLYEkfle~~Pe~c~~W~ky  477 (677)
T KOG1915|consen  400 KFTFAKIWLMYAQFEIRQLNLTGARKILGNAIG--KCPKDKLFKGYIELELQLREFDRCRKLYEKFLEFSPENCYAWSKY  477 (677)
T ss_pred             cchHHHHHHHHHHHHHHHcccHHHHHHHHHHhc--cCCchhHHHHHHHHHHHHhhHHHHHHHHHHHHhcChHhhHHHHHH
Confidence            56766554444    367888999999887764  5688889999999889999999999999998 6667 45788888


Q ss_pred             HHHHHhcCChhHHHHHHHHHHhcCCCCC--chHHHHHHHHHhccChHHHHHHHHHHHhcC
Q 039362          372 LTGCMNHGKLDLAEIVGKKLVELQPDHD--GRYVGLSNVYAIFKRWDEARTTREAMETRG  429 (440)
Q Consensus       372 ~~~~~~~g~~~~a~~~~~~~~~~~~~~~--~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  429 (440)
                      ...-...|+.+.|..+|+-+++....+.  ..|-+.+..-...|.++.|+.+++++++..
T Consensus       478 aElE~~LgdtdRaRaifelAi~qp~ldmpellwkaYIdFEi~~~E~ekaR~LYerlL~rt  537 (677)
T KOG1915|consen  478 AELETSLGDTDRARAIFELAISQPALDMPELLWKAYIDFEIEEGEFEKARALYERLLDRT  537 (677)
T ss_pred             HHHHHHhhhHHHHHHHHHHHhcCcccccHHHHHHHhhhhhhhcchHHHHHHHHHHHHHhc
Confidence            8888889999999999999987663322  257778888888999999999999998864

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

Probab=99.78  E-value=1.2e-15  Score=138.72  Aligned_cols=358  Identities=17%  Similarity=0.135  Sum_probs=235.1

Q ss_pred             HHhhchhcHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhcCCHHHHHHHhhC---CCCCchhhHHHHHHHHHhcCChHH
Q 039362           71 KASGRLAKRELAVAVHAQIAKTGYESDLFISNSLIHMYGSCGDIVYAREVFDG---MPTKMSVSWNSMLDGYAKCGEMNM  147 (440)
Q Consensus        71 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~---~~~~~~~~~~~l~~~~~~~~~~~~  147 (440)
                      ..+...|+.++|.+++.++++..+. +...|..|...|-..|+.+++...+-.   +...|...|..+.....+.|.+++
T Consensus       147 N~lfarg~~eeA~~i~~EvIkqdp~-~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL~p~d~e~W~~ladls~~~~~i~q  225 (895)
T KOG2076|consen  147 NNLFARGDLEEAEEILMEVIKQDPR-NPIAYYTLGEIYEQRGDIEKALNFWLLAAHLNPKDYELWKRLADLSEQLGNINQ  225 (895)
T ss_pred             HHHHHhCCHHHHHHHHHHHHHhCcc-chhhHHHHHHHHHHcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcccHHH
Confidence            3344458888999998888887644 677788888888888888888776533   334466677777777777788888


Q ss_pred             HHHHHhhCCCC---chhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHH----HHHHHHHHHhcCChHHHHHHHHH
Q 039362          148 ARQVFELMPER---NVVSWSALIDGYVKCGDYKEALVIFEEMRDVGSKANEVT----LVSVLCACAHLGALDQGRMMLRY  220 (440)
Q Consensus       148 a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~----~~~l~~~~~~~~~~~~a~~~~~~  220 (440)
                      |.-.|.++.+.   +...+-.-+..|.+.|+...|...|.++.....+.|..-    ...+++.+...++-+.|.+.++.
T Consensus       226 A~~cy~rAI~~~p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~~~~~e~a~~~le~  305 (895)
T KOG2076|consen  226 ARYCYSRAIQANPSNWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHNERERAAKALEG  305 (895)
T ss_pred             HHHHHHHHHhcCCcchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence            88888777653   333334445667777888888888888776642222222    22334455556666777777766


Q ss_pred             HHHcC-CCCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhc--CCchhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcc
Q 039362          221 MIDKG-LSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKH--QSDVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPD  297 (440)
Q Consensus       221 ~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~  297 (440)
                      ....+ -..+...++.++..|.+...++.|..........  .+|..-|.+-=     .++ ..-..++.  ...++.++
T Consensus       306 ~~s~~~~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~-----~~~-~~~~~~~~--~~~~~s~~  377 (895)
T KOG2076|consen  306 ALSKEKDEASLEDLNILAELFLKNKQSDKALMKIVDDRNRESEKDDSEWDTDE-----RRR-EEPNALCE--VGKELSYD  377 (895)
T ss_pred             HHhhccccccccHHHHHHHHHHHhHHHHHhhHHHHHHhccccCCChhhhhhhh-----hcc-cccccccc--CCCCCCcc
Confidence            65521 1344556666777777777777776666655431  22222111000     000 00000000  01122333


Q ss_pred             HhhHHHHHHHHHcCCChHHHHHHHHHHhhcCCCC--CcchHHHHHHHHHhcCCHHHHHHHHhcC-CCCc--cHhHHHHHH
Q 039362          298 EITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVP--KSEHYACMVDALSRAGQVTEAYEFICQM-PLEP--TASMLGSLL  372 (440)
Q Consensus       298 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p--~~~~~~~l~  372 (440)
                      ...+ .+.-++.+.+..+....+...+.+..+.|  +...|.-+..+|...|++.+|+.+|..+ ...+  +...|..++
T Consensus       378 l~v~-rl~icL~~L~~~e~~e~ll~~l~~~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~a  456 (895)
T KOG2076|consen  378 LRVI-RLMICLVHLKERELLEALLHFLVEDNVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVWYKLA  456 (895)
T ss_pred             chhH-hHhhhhhcccccchHHHHHHHHHHhcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHHHH
Confidence            3331 22223445555555555666666655333  5667889999999999999999999998 2222  456899999


Q ss_pred             HHHHhcCChhHHHHHHHHHHhcCCCCCchHHHHHHHHHhccChHHHHHHHHHHHhcCCccCCCCCC
Q 039362          373 TGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEARTTREAMETRGVKKYPGWSF  438 (440)
Q Consensus       373 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~  438 (440)
                      .+|...|.+++|++.|++++...|.+..+-.+|...+.+.|+.++|.+.++.+..-+....+++.|
T Consensus       457 ~c~~~l~e~e~A~e~y~kvl~~~p~~~D~Ri~Lasl~~~~g~~EkalEtL~~~~~~D~~~~e~~a~  522 (895)
T KOG2076|consen  457 RCYMELGEYEEAIEFYEKVLILAPDNLDARITLASLYQQLGNHEKALETLEQIINPDGRNAEACAW  522 (895)
T ss_pred             HHHHHHhhHHHHHHHHHHHHhcCCCchhhhhhHHHHHHhcCCHHHHHHHHhcccCCCccchhhccc
Confidence            999999999999999999999999999999999999999999999999999887444334455554

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

Probab=99.77  E-value=2.1e-14  Score=130.65  Aligned_cols=414  Identities=14%  Similarity=0.134  Sum_probs=268.3

Q ss_pred             CChhhHHHHhhhcC---CCChHHHHHHHHHHHccCChhhHHHHHHHHHHcCCCCCcchHHHHHHHhhchhcHHHHHHHHH
Q 039362           11 GNIDYSCKVLSHLS---NPRIFYWNTVIRGYSKSKNPNKSISLFVKMLRAGVSPDHLTYPFLAKASGRLAKRELAVAVHA   87 (440)
Q Consensus        11 g~~~~A~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~   87 (440)
                      |++++|.+++.++.   +.+..+|.+|...|-+.|+.+++...+-.+-.. .+-|...|..+.....+.|++++|.-.|.
T Consensus       153 g~~eeA~~i~~EvIkqdp~~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL-~p~d~e~W~~ladls~~~~~i~qA~~cy~  231 (895)
T KOG2076|consen  153 GDLEEAEEILMEVIKQDPRNPIAYYTLGEIYEQRGDIEKALNFWLLAAHL-NPKDYELWKRLADLSEQLGNINQARYCYS  231 (895)
T ss_pred             CCHHHHHHHHHHHHHhCccchhhHHHHHHHHHHcccHHHHHHHHHHHHhc-CCCChHHHHHHHHHHHhcccHHHHHHHHH
Confidence            99999999999875   567789999999999999999998876544332 34466889999999999999999999999


Q ss_pred             HHHHcCCCCcHHHHHHHHHHHHhcCCHHHHHHHhhCCCCCch----h----hHHHHHHHHHhcCChHHHHHHHhhCCC--
Q 039362           88 QIAKTGYESDLFISNSLIHMYGSCGDIVYAREVFDGMPTKMS----V----SWNSMLDGYAKCGEMNMARQVFELMPE--  157 (440)
Q Consensus        88 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~----~----~~~~l~~~~~~~~~~~~a~~~~~~~~~--  157 (440)
                      ++++..+. +...+---+..|-+.|+...|...|.++...++    .    .-...+..+...++-+.|.+.++....  
T Consensus       232 rAI~~~p~-n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~~~~~e~a~~~le~~~s~~  310 (895)
T KOG2076|consen  232 RAIQANPS-NWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHNERERAAKALEGALSKE  310 (895)
T ss_pred             HHHhcCCc-chHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhhc
Confidence            99998644 666666677889999999999998888765322    1    223345667777777888888877654  


Q ss_pred             ---CchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC---------------------------CHHHHHHHHHHHHh
Q 039362          158 ---RNVVSWSALIDGYVKCGDYKEALVIFEEMRDVGSKA---------------------------NEVTLVSVLCACAH  207 (440)
Q Consensus       158 ---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---------------------------~~~~~~~l~~~~~~  207 (440)
                         -+...++.++..+.+..+++.+......+......+                           +... ..+.-++..
T Consensus       311 ~~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~~~~~~~~~~~s~~l~v-~rl~icL~~  389 (895)
T KOG2076|consen  311 KDEASLEDLNILAELFLKNKQSDKALMKIVDDRNRESEKDDSEWDTDERRREEPNALCEVGKELSYDLRV-IRLMICLVH  389 (895)
T ss_pred             cccccccHHHHHHHHHHHhHHHHHhhHHHHHHhccccCCChhhhhhhhhccccccccccCCCCCCccchh-HhHhhhhhc
Confidence               245578888999999999999988887776521111                           1111 112223344


Q ss_pred             cCChHHHHHHHHHHHHcC--CCCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCC--chhhHHHHHHHHHhcCChHHHH
Q 039362          208 LGALDQGRMMLRYMIDKG--LSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQS--DVLIWNAMIGGLAMHGFVKESL  283 (440)
Q Consensus       208 ~~~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~  283 (440)
                      .+..+....+.....+.+  ...+...|.-+..+|.+.|++.+|+.+|..+....+  +...|-.+..+|...|.++.|.
T Consensus       390 L~~~e~~e~ll~~l~~~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~a~c~~~l~e~e~A~  469 (895)
T KOG2076|consen  390 LKERELLEALLHFLVEDNVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVWYKLARCYMELGEYEEAI  469 (895)
T ss_pred             ccccchHHHHHHHHHHhcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHHHHHHHHHHhhHHHHH
Confidence            444444444555555554  233455666677777777777777777777765533  3456667777777777777777


Q ss_pred             HHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHhhc--------CCCCCcchHHHHHHHHHhcCCHHHHHHH
Q 039362          284 ELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKR--------GMVPKSEHYACMVDALSRAGQVTEAYEF  355 (440)
Q Consensus       284 ~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--------~~~~~~~~~~~l~~~~~~~~~~~~a~~~  355 (440)
                      +.++...... +.+...-..|...+.+.|+.++|.+.+..+..-        +..|+..........+...|+.++-+..
T Consensus       470 e~y~kvl~~~-p~~~D~Ri~Lasl~~~~g~~EkalEtL~~~~~~D~~~~e~~a~~~e~ri~~~r~d~l~~~gk~E~fi~t  548 (895)
T KOG2076|consen  470 EFYEKVLILA-PDNLDARITLASLYQQLGNHEKALETLEQIINPDGRNAEACAWEPERRILAHRCDILFQVGKREEFINT  548 (895)
T ss_pred             HHHHHHHhcC-CCchhhhhhHHHHHHhcCCHHHHHHHHhcccCCCccchhhccccHHHHHHHHHHHHHHHhhhHHHHHHH
Confidence            7777766542 223334445555566677777777776664321        2223333333334444455554432222


Q ss_pred             HhcC------------------------------------------------------------------CCCcc--HhH
Q 039362          356 ICQM------------------------------------------------------------------PLEPT--ASM  367 (440)
Q Consensus       356 ~~~~------------------------------------------------------------------~~~p~--~~~  367 (440)
                      ...|                                                                  ++.-+  ...
T Consensus       549 ~~~Lv~~~~~~~~~f~~~~k~r~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~~~~l~d~~~~~~~e~~~Lsiddwfel  628 (895)
T KOG2076|consen  549 ASTLVDDFLKKRYIFPRNKKKRRRAIAGTTSKRYSELLKQIIRAREKATDDNVMEKALSDGTEFRAVELRGLSIDDWFEL  628 (895)
T ss_pred             HHHHHHHHHHHHHhcchHHHHHHHhhccccccccchhHHHHHHHHhccCchHHhhhcccchhhhhhhhhccCcHHHHHHH
Confidence            1111                                                                  00001  123


Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHhcC--CCCCc----hHHHHHHHHHhccChHHHHHHHHHHHhc
Q 039362          368 LGSLLTGCMNHGKLDLAEIVGKKLVELQ--PDHDG----RYVGLSNVYAIFKRWDEARTTREAMETR  428 (440)
Q Consensus       368 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~--~~~~~----~~~~l~~~~~~~g~~~~A~~~~~~~~~~  428 (440)
                      +..++.++.+.+++++|..+...+.+..  -.++.    .-...+.+....+++.+|...+..|...
T Consensus       629 ~~e~i~~L~k~~r~qeAl~vv~~a~~~~~f~~~~~~~k~l~~~~l~~s~~~~d~~~a~~~lR~~i~~  695 (895)
T KOG2076|consen  629 FRELILSLAKLQRVQEALSVVFTALEAYIFFQDSEIRKELQFLGLKASLYARDPGDAFSYLRSVITQ  695 (895)
T ss_pred             HHHHHHHHHHHHhHHHHHHHHHHHHhhhhhhccHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH
Confidence            4455667778888888888888887754  11111    2233445556778888888888887765

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

Probab=99.76  E-value=7.2e-14  Score=122.88  Aligned_cols=347  Identities=11%  Similarity=0.069  Sum_probs=170.4

Q ss_pred             CChhhHHHHHHHHHHcCCCCCcchHHHHHHHhhchhcHHHHHHHHHHHH----HcCCCCcHHHHHHHHHHHHhcCCHHHH
Q 039362           42 KNPNKSISLFVKMLRAGVSPDHLTYPFLAKASGRLAKRELAVAVHAQIA----KTGYESDLFISNSLIHMYGSCGDIVYA  117 (440)
Q Consensus        42 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~----~~~~~~~~~~~~~l~~~~~~~g~~~~a  117 (440)
                      .-++.|..+++...+. ++.+...|.+....--.+|+.+.+.+++++..    ..|+..+..-|-.=...|-..|..-.+
T Consensus       420 etYenAkkvLNkaRe~-iptd~~IWitaa~LEE~ngn~~mv~kii~rgl~~L~~ngv~i~rdqWl~eAe~~e~agsv~Tc  498 (913)
T KOG0495|consen  420 ETYENAKKVLNKAREI-IPTDREIWITAAKLEEANGNVDMVEKIIDRGLSELQANGVEINRDQWLKEAEACEDAGSVITC  498 (913)
T ss_pred             HHHHHHHHHHHHHHhh-CCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhcceeecHHHHHHHHHHHhhcCChhhH
Confidence            3344444444444433 33344444444444444444444444433322    234444444444444444444444444


Q ss_pred             HHHhhCCCC-----C-chhhHHHHHHHHHhcCChHHHHHHHhhCCC---CchhhHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 039362          118 REVFDGMPT-----K-MSVSWNSMLDGYAKCGEMNMARQVFELMPE---RNVVSWSALIDGYVKCGDYKEALVIFEEMRD  188 (440)
Q Consensus       118 ~~~~~~~~~-----~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  188 (440)
                      ..+...+..     . -..+|..-...|.+.+.++-|+.+|....+   .+...|...+..--..|..+....+|++...
T Consensus       499 QAIi~avigigvEeed~~~tw~~da~~~~k~~~~~carAVya~alqvfp~k~slWlra~~~ek~hgt~Esl~Allqkav~  578 (913)
T KOG0495|consen  499 QAIIRAVIGIGVEEEDRKSTWLDDAQSCEKRPAIECARAVYAHALQVFPCKKSLWLRAAMFEKSHGTRESLEALLQKAVE  578 (913)
T ss_pred             HHHHHHHHhhccccchhHhHHhhhHHHHHhcchHHHHHHHHHHHHhhccchhHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Confidence            333333221     1 122455555555555555555555555443   2333444444444445555555555655554


Q ss_pred             cCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCCchhhHHH
Q 039362          189 VGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQSDVLIWNA  268 (440)
Q Consensus       189 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~  268 (440)
                      . ++-....+......+-..|+...|..++..+.+.+ +.+..++..-+........++.|..+|.+.....|+...|.-
T Consensus       579 ~-~pkae~lwlM~ake~w~agdv~~ar~il~~af~~~-pnseeiwlaavKle~en~e~eraR~llakar~~sgTeRv~mK  656 (913)
T KOG0495|consen  579 Q-CPKAEILWLMYAKEKWKAGDVPAARVILDQAFEAN-PNSEEIWLAAVKLEFENDELERARDLLAKARSISGTERVWMK  656 (913)
T ss_pred             h-CCcchhHHHHHHHHHHhcCCcHHHHHHHHHHHHhC-CCcHHHHHHHHHHhhccccHHHHHHHHHHHhccCCcchhhHH
Confidence            4 12233333333444445566666666666655554 345555555555555666666666666665555555555555


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHcCCCcc-HhhHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcC
Q 039362          269 MIGGLAMHGFVKESLELFTEMQIVGITPD-EITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAG  347 (440)
Q Consensus       269 l~~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  347 (440)
                      -+...--.++.++|.+++++..+.  -|+ ...|..+.+.+.+.++.+.|...|..=.+. ++.....|..|.+.--+.|
T Consensus       657 s~~~er~ld~~eeA~rllEe~lk~--fp~f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k~-cP~~ipLWllLakleEk~~  733 (913)
T KOG0495|consen  657 SANLERYLDNVEEALRLLEEALKS--FPDFHKLWLMLGQIEEQMENIEMAREAYLQGTKK-CPNSIPLWLLLAKLEEKDG  733 (913)
T ss_pred             HhHHHHHhhhHHHHHHHHHHHHHh--CCchHHHHHHHhHHHHHHHHHHHHHHHHHhcccc-CCCCchHHHHHHHHHHHhc
Confidence            554444555566666666555543  333 234555555555555555555555443332 1223334555555555555


Q ss_pred             CHHHHHHHHhcC--CCCccHhHHHHHHHHHHhcCChhHHHHHHHHHHhc
Q 039362          348 QVTEAYEFICQM--PLEPTASMLGSLLTGCMNHGKLDLAEIVGKKLVEL  394 (440)
Q Consensus       348 ~~~~a~~~~~~~--~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  394 (440)
                      .+..|..++++.  +...+...|...++.-.+.|..+.|..+..++++.
T Consensus       734 ~~~rAR~ildrarlkNPk~~~lwle~Ir~ElR~gn~~~a~~lmakALQe  782 (913)
T KOG0495|consen  734 QLVRARSILDRARLKNPKNALLWLESIRMELRAGNKEQAELLMAKALQE  782 (913)
T ss_pred             chhhHHHHHHHHHhcCCCcchhHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            666666666655  22234455555566555666666666555555543

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.75  E-value=1.1e-14  Score=130.12  Aligned_cols=277  Identities=13%  Similarity=0.084  Sum_probs=166.3

Q ss_pred             cCChhhHHHHHHHHHHcCCCCCcch-HHHHHHHhhchhcHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhcCCHHHHHH
Q 039362           41 SKNPNKSISLFVKMLRAGVSPDHLT-YPFLAKASGRLAKRELAVAVHAQIAKTGYESDLFISNSLIHMYGSCGDIVYARE  119 (440)
Q Consensus        41 ~~~~~~a~~~~~~~~~~~~~~~~~~-~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~  119 (440)
                      .|+++.|.+.+....+.+  +++.. |.....+..+.|+++.|.+.+.++.+..+.+...........+...|+++.|..
T Consensus        97 eGd~~~A~k~l~~~~~~~--~~p~l~~llaA~aA~~~g~~~~A~~~l~~A~~~~~~~~~~~~l~~a~l~l~~g~~~~Al~  174 (398)
T PRK10747         97 EGDYQQVEKLMTRNADHA--EQPVVNYLLAAEAAQQRGDEARANQHLERAAELADNDQLPVEITRVRIQLARNENHAARH  174 (398)
T ss_pred             CCCHHHHHHHHHHHHhcc--cchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHCCCHHHHHH
Confidence            567777776666544431  22222 222233346667777777777776654322222222233556666777777777


Q ss_pred             HhhCCCC---CchhhHHHHHHHHHhcCChHHHHHHHhhCCCC---ch--------hhHHHHHHHHHhcCCHHHHHHHHHH
Q 039362          120 VFDGMPT---KMSVSWNSMLDGYAKCGEMNMARQVFELMPER---NV--------VSWSALIDGYVKCGDYKEALVIFEE  185 (440)
Q Consensus       120 ~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~--------~~~~~l~~~~~~~~~~~~a~~~~~~  185 (440)
                      .++.+.+   .++.....+...|.+.|++++|.+++..+.+.   +.        .+|..++.......+.+...++++.
T Consensus       175 ~l~~~~~~~P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~~~~~~~~~l~~~w~~  254 (398)
T PRK10747        175 GVDKLLEVAPRHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQAMADQGSEGLKRWWKN  254 (398)
T ss_pred             HHHHHHhcCCCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHh
Confidence            7666553   24445666666777777777777666666541   11        1233333333344455555555555


Q ss_pred             HHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCCc-hh
Q 039362          186 MRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQSD-VL  264 (440)
Q Consensus       186 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~  264 (440)
                      +.+. .+.+......+...+...|+.++|..+++...+.  +++....  ++.+....++.++++...+...+..|+ ..
T Consensus       255 lp~~-~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~--~~~~~l~--~l~~~l~~~~~~~al~~~e~~lk~~P~~~~  329 (398)
T PRK10747        255 QSRK-TRHQVALQVAMAEHLIECDDHDTAQQIILDGLKR--QYDERLV--LLIPRLKTNNPEQLEKVLRQQIKQHGDTPL  329 (398)
T ss_pred             CCHH-HhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHHH--HHHhhccCCChHHHHHHHHHHHhhCCCCHH
Confidence            5333 2445566667777777777777777777777663  3444222  223333457777777777777766664 44


Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHhh
Q 039362          265 IWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGK  326 (440)
Q Consensus       265 ~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  326 (440)
                      .+..+...+.+.+++++|.+.|+.+.+.  .|+..++..+...+.+.|+.++|.+++++...
T Consensus       330 l~l~lgrl~~~~~~~~~A~~~le~al~~--~P~~~~~~~La~~~~~~g~~~~A~~~~~~~l~  389 (398)
T PRK10747        330 LWSTLGQLLMKHGEWQEASLAFRAALKQ--RPDAYDYAWLADALDRLHKPEEAAAMRRDGLM  389 (398)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            5667777777778888888888777764  57777777777777778888888777776654

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

Probab=99.74  E-value=2.5e-13  Score=115.16  Aligned_cols=404  Identities=14%  Similarity=0.128  Sum_probs=308.0

Q ss_pred             hHHHHHHHHHHHccCChhhHHHHHHHHHHcCCCCCcchHHHHHHHhhchhcHHHHHHHHHHHHHcCCCCcHHHHHHHHHH
Q 039362           28 IFYWNTVIRGYSKSKNPNKSISLFVKMLRAGVSPDHLTYPFLAKASGRLAKRELAVAVHAQIAKTGYESDLFISNSLIHM  107 (440)
Q Consensus        28 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  107 (440)
                      ...|-....--...+++..|.++|++.+.-. ..+...|..-+.+-.+...+..|..+++..+..-+..| ..+...+.+
T Consensus        73 ~~~WikYaqwEesq~e~~RARSv~ERALdvd-~r~itLWlkYae~Emknk~vNhARNv~dRAvt~lPRVd-qlWyKY~ym  150 (677)
T KOG1915|consen   73 MQVWIKYAQWEESQKEIQRARSVFERALDVD-YRNITLWLKYAEFEMKNKQVNHARNVWDRAVTILPRVD-QLWYKYIYM  150 (677)
T ss_pred             HHHHHHHHHHHHhHHHHHHHHHHHHHHHhcc-cccchHHHHHHHHHHhhhhHhHHHHHHHHHHHhcchHH-HHHHHHHHH
Confidence            3345555555556788899999999998754 45666788888888899999999999999988644434 344555556


Q ss_pred             HHhcCCHHHHHHHhhCCC--CCchhhHHHHHHHHHhcCChHHHHHHHhhCC--CCchhhHHHHHHHHHhcCCHHHHHHHH
Q 039362          108 YGSCGDIVYAREVFDGMP--TKMSVSWNSMLDGYAKCGEMNMARQVFELMP--ERNVVSWSALIDGYVKCGDYKEALVIF  183 (440)
Q Consensus       108 ~~~~g~~~~a~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~  183 (440)
                      --..|++..|.++|+.-.  +|+...|.+.++.=.+-+.++.|..++++..  .|++.+|-..+..-.+.|+...+..+|
T Consensus       151 EE~LgNi~gaRqiferW~~w~P~eqaW~sfI~fElRykeieraR~IYerfV~~HP~v~~wikyarFE~k~g~~~~aR~Vy  230 (677)
T KOG1915|consen  151 EEMLGNIAGARQIFERWMEWEPDEQAWLSFIKFELRYKEIERARSIYERFVLVHPKVSNWIKYARFEEKHGNVALARSVY  230 (677)
T ss_pred             HHHhcccHHHHHHHHHHHcCCCcHHHHHHHHHHHHHhhHHHHHHHHHHHHheecccHHHHHHHHHHHHhcCcHHHHHHHH
Confidence            667899999999999876  5899999999999999999999999999865  499999999999899999999999999


Q ss_pred             HHHHhc-CC-CCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCc--hhhHHHHHHHHHhcCCHHHHHHH-------
Q 039362          184 EEMRDV-GS-KANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLT--LPLQTSLIDMYAKCGAIKEALIV-------  252 (440)
Q Consensus       184 ~~~~~~-~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~A~~~-------  252 (440)
                      +...+. |- ..+...+.+...-=.+.+.++.|.-+|+..++.- |.+  ...|..+...--+-|+.....+.       
T Consensus       231 erAie~~~~d~~~e~lfvaFA~fEe~qkE~ERar~iykyAld~~-pk~raeeL~k~~~~fEKqfGd~~gIEd~Iv~KRk~  309 (677)
T KOG1915|consen  231 ERAIEFLGDDEEAEILFVAFAEFEERQKEYERARFIYKYALDHI-PKGRAEELYKKYTAFEKQFGDKEGIEDAIVGKRKF  309 (677)
T ss_pred             HHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc-CcccHHHHHHHHHHHHHHhcchhhhHHHHhhhhhh
Confidence            988664 10 1122334444444456778899999999988764 433  45566665555556664443332       


Q ss_pred             -HhhhhhcCC-chhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHh-------hHHHHHHHH---HcCCChHHHHHH
Q 039362          253 -FHGVEKHQS-DVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEI-------TFLGLLSAC---AHGGLVMEAWYF  320 (440)
Q Consensus       253 -~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~-------~~~~l~~~~---~~~~~~~~a~~~  320 (440)
                       |+...+..| |-.+|-..+..-...|+.+...+++++.... ++|-..       .|..+=-+|   ....+.+.+.++
T Consensus       310 qYE~~v~~np~nYDsWfdylrL~e~~g~~~~Ire~yErAIan-vpp~~ekr~W~RYIYLWinYalyeEle~ed~ertr~v  388 (677)
T KOG1915|consen  310 QYEKEVSKNPYNYDSWFDYLRLEESVGDKDRIRETYERAIAN-VPPASEKRYWRRYIYLWINYALYEELEAEDVERTRQV  388 (677)
T ss_pred             HHHHHHHhCCCCchHHHHHHHHHHhcCCHHHHHHHHHHHHcc-CCchhHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHH
Confidence             233333334 6778888888888889999999999999865 455321       122221122   256899999999


Q ss_pred             HHHHhhcCCCCCcchHHH----HHHHHHhcCCHHHHHHHHhcC-CCCccHhHHHHHHHHHHhcCChhHHHHHHHHHHhcC
Q 039362          321 FKSLGKRGMVPKSEHYAC----MVDALSRAGQVTEAYEFICQM-PLEPTASMLGSLLTGCMNHGKLDLAEIVGKKLVELQ  395 (440)
Q Consensus       321 ~~~~~~~~~~~~~~~~~~----l~~~~~~~~~~~~a~~~~~~~-~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  395 (440)
                      |+..++. ++....||..    ....-.++.++..|.+++... |.-|...++...+..-.+.++++....++++.++.+
T Consensus       389 yq~~l~l-IPHkkFtFaKiWlmyA~feIRq~~l~~ARkiLG~AIG~cPK~KlFk~YIelElqL~efDRcRkLYEkfle~~  467 (677)
T KOG1915|consen  389 YQACLDL-IPHKKFTFAKIWLMYAQFEIRQLNLTGARKILGNAIGKCPKDKLFKGYIELELQLREFDRCRKLYEKFLEFS  467 (677)
T ss_pred             HHHHHhh-cCcccchHHHHHHHHHHHHHHHcccHHHHHHHHHHhccCCchhHHHHHHHHHHHHhhHHHHHHHHHHHHhcC
Confidence            9999883 3334455443    344456889999999999988 899999999999999999999999999999999999


Q ss_pred             CCCCchHHHHHHHHHhccChHHHHHHHHHHHhcCCccCCCC
Q 039362          396 PDHDGRYVGLSNVYAIFKRWDEARTTREAMETRGVKKYPGW  436 (440)
Q Consensus       396 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~  436 (440)
                      |.+..+|...+..-...|+++.|+.+|+-.+++..-..|..
T Consensus       468 Pe~c~~W~kyaElE~~LgdtdRaRaifelAi~qp~ldmpel  508 (677)
T KOG1915|consen  468 PENCYAWSKYAELETSLGDTDRARAIFELAISQPALDMPEL  508 (677)
T ss_pred             hHhhHHHHHHHHHHHHhhhHHHHHHHHHHHhcCcccccHHH
Confidence            99999999999999999999999999999998876555543

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

Probab=99.74  E-value=1.7e-13  Score=115.72  Aligned_cols=327  Identities=13%  Similarity=0.066  Sum_probs=236.4

Q ss_pred             CCcHHHHHHHHHHHHhcCCHHHHHHHhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHhhCCCCchh-hHHHHHHHHHhc
Q 039362           95 ESDLFISNSLIHMYGSCGDIVYAREVFDGMPTKMSVSWNSMLDGYAKCGEMNMARQVFELMPERNVV-SWSALIDGYVKC  173 (440)
Q Consensus        95 ~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~l~~~~~~~  173 (440)
                      ..|...+-.....+.+.|..+.|+..|......-+..|.+.+....-..+.+.+..+.......+.. .=-.+..++...
T Consensus       161 ~~D~fllYL~Gvv~k~~~~~s~A~~sfv~~v~~~P~~W~AWleL~~lit~~e~~~~l~~~l~~~~h~M~~~F~~~a~~el  240 (559)
T KOG1155|consen  161 EKDEFLLYLYGVVLKELGLLSLAIDSFVEVVNRYPWFWSAWLELSELITDIEILSILVVGLPSDMHWMKKFFLKKAYQEL  240 (559)
T ss_pred             cchhHHHHHHHHHHHhhchHHHHHHHHHHHHhcCCcchHHHHHHHHhhchHHHHHHHHhcCcccchHHHHHHHHHHHHHH
Confidence            3455544444555666777777777777666544555555444443344444444443333322111 111234566666


Q ss_pred             CCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC---chhhHHHHHHHHHhcCCHH-HH
Q 039362          174 GDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSL---TLPLQTSLIDMYAKCGAIK-EA  249 (440)
Q Consensus       174 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~g~~~-~A  249 (440)
                      .+.+++..-.+.....|++.+...-+....+.-...++++|+.+|+++.+.. |.   |..+|..++-.-.....+. -|
T Consensus       241 ~q~~e~~~k~e~l~~~gf~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knD-PYRl~dmdlySN~LYv~~~~skLs~LA  319 (559)
T KOG1155|consen  241 HQHEEALQKKERLSSVGFPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKND-PYRLDDMDLYSNVLYVKNDKSKLSYLA  319 (559)
T ss_pred             HHHHHHHHHHHHHHhccCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcC-CCcchhHHHHhHHHHHHhhhHHHHHHH
Confidence            7888888888888888876666666666666678889999999999998874 43   3455555443322211111 11


Q ss_pred             HHHHhhhhhcCCchhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHhhcCC
Q 039362          250 LIVFHGVEKHQSDVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKRGM  329 (440)
Q Consensus       250 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  329 (440)
                      ..++ .+.  +-.+.|...+..-|.-.++.++|+..|++..+.+ +.....|+.+.+-|....+...|++-++++++.. 
T Consensus       320 ~~v~-~id--KyR~ETCCiIaNYYSlr~eHEKAv~YFkRALkLN-p~~~~aWTLmGHEyvEmKNt~AAi~sYRrAvdi~-  394 (559)
T KOG1155|consen  320 QNVS-NID--KYRPETCCIIANYYSLRSEHEKAVMYFKRALKLN-PKYLSAWTLMGHEYVEMKNTHAAIESYRRAVDIN-  394 (559)
T ss_pred             HHHH-Hhc--cCCccceeeehhHHHHHHhHHHHHHHHHHHHhcC-cchhHHHHHhhHHHHHhcccHHHHHHHHHHHhcC-
Confidence            1111 111  2345667777888888899999999999999875 3345678888889999999999999999999864 


Q ss_pred             CCCcchHHHHHHHHHhcCCHHHHHHHHhcC-CCCc-cHhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCCchHHHHHH
Q 039362          330 VPKSEHYACMVDALSRAGQVTEAYEFICQM-PLEP-TASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSN  407 (440)
Q Consensus       330 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~  407 (440)
                      +.|-..|..|.++|.-.+...-|+-.|++. ..+| |...|..|+.+|.+.++.++|++.|.++...+..+...+..++.
T Consensus       395 p~DyRAWYGLGQaYeim~Mh~YaLyYfqkA~~~kPnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~dte~~~l~~Lak  474 (559)
T KOG1155|consen  395 PRDYRAWYGLGQAYEIMKMHFYALYYFQKALELKPNDSRLWVALGECYEKLNRLEEAIKCYKRAILLGDTEGSALVRLAK  474 (559)
T ss_pred             chhHHHHhhhhHHHHHhcchHHHHHHHHHHHhcCCCchHHHHHHHHHHHHhccHHHHHHHHHHHHhccccchHHHHHHHH
Confidence            347888999999999999999999999998 6677 67899999999999999999999999999999888889999999


Q ss_pred             HHHhccChHHHHHHHHHHHh
Q 039362          408 VYAIFKRWDEARTTREAMET  427 (440)
Q Consensus       408 ~~~~~g~~~~A~~~~~~~~~  427 (440)
                      .|-+.++.++|...+++-++
T Consensus       475 Lye~l~d~~eAa~~yek~v~  494 (559)
T KOG1155|consen  475 LYEELKDLNEAAQYYEKYVE  494 (559)
T ss_pred             HHHHHHhHHHHHHHHHHHHH
Confidence            99999999999999988876

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

Probab=99.73  E-value=1.4e-15  Score=133.95  Aligned_cols=279  Identities=15%  Similarity=0.082  Sum_probs=226.0

Q ss_pred             CChHHHHHHHhhCCC--C-chhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCC--CCCHHHHHHHHHHHHhcCChHHHHHH
Q 039362          143 GEMNMARQVFELMPE--R-NVVSWSALIDGYVKCGDYKEALVIFEEMRDVGS--KANEVTLVSVLCACAHLGALDQGRMM  217 (440)
Q Consensus       143 ~~~~~a~~~~~~~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~  217 (440)
                      -+..+|...|..+++  + +..+...+..+|...+++++|.++|+.+.+...  .-+..+|.+.+..+-+    +-+...
T Consensus       333 y~~~~A~~~~~klp~h~~nt~wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~----~v~Ls~  408 (638)
T KOG1126|consen  333 YNCREALNLFEKLPSHHYNTGWVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQD----EVALSY  408 (638)
T ss_pred             HHHHHHHHHHHhhHHhcCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHh----hHHHHH
Confidence            356788888888654  2 335566778999999999999999999977521  1255678887766532    223333


Q ss_pred             H-HHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCC-chhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCC
Q 039362          218 L-RYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQS-DVLIWNAMIGGLAMHGFVKESLELFTEMQIVGIT  295 (440)
Q Consensus       218 ~-~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~  295 (440)
                      + +.+.+.. +..+.+|.++..+|.-.++.+.|++.|++..+..| ...+|+.+..-+.....+|.|...|+.....  .
T Consensus       409 Laq~Li~~~-~~sPesWca~GNcfSLQkdh~~Aik~f~RAiQldp~faYayTLlGhE~~~~ee~d~a~~~fr~Al~~--~  485 (638)
T KOG1126|consen  409 LAQDLIDTD-PNSPESWCALGNCFSLQKDHDTAIKCFKRAIQLDPRFAYAYTLLGHESIATEEFDKAMKSFRKALGV--D  485 (638)
T ss_pred             HHHHHHhhC-CCCcHHHHHhcchhhhhhHHHHHHHHHHHhhccCCccchhhhhcCChhhhhHHHHhHHHHHHhhhcC--C
Confidence            3 3344444 77889999999999999999999999999998888 6889999999999999999999999988743  3


Q ss_pred             cc-HhhHHHHHHHHHcCCChHHHHHHHHHHhhcCCCC-CcchHHHHHHHHHhcCCHHHHHHHHhcC-CCCc-cHhHHHHH
Q 039362          296 PD-EITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVP-KSEHYACMVDALSRAGQVTEAYEFICQM-PLEP-TASMLGSL  371 (440)
Q Consensus       296 p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l  371 (440)
                      |. -..|..+...|.+.++++.|+-.|+++.+.+  | +.+....+...+.+.|+.++|+++++++ .+.| |+..-...
T Consensus       486 ~rhYnAwYGlG~vy~Kqek~e~Ae~~fqkA~~IN--P~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~kn~l~~~~~  563 (638)
T KOG1126|consen  486 PRHYNAWYGLGTVYLKQEKLEFAEFHFQKAVEIN--PSNSVILCHIGRIQHQLKRKDKALQLYEKAIHLDPKNPLCKYHR  563 (638)
T ss_pred             chhhHHHHhhhhheeccchhhHHHHHHHhhhcCC--ccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCCCCchhHHHH
Confidence            33 2466778888999999999999999999854  4 5667778888999999999999999998 5555 44455566


Q ss_pred             HHHHHhcCChhHHHHHHHHHHhcCCCCCchHHHHHHHHHhccChHHHHHHHHHHHhcCC
Q 039362          372 LTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEARTTREAMETRGV  430 (440)
Q Consensus       372 ~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  430 (440)
                      +..+...+++++|+..++++.+.-|++..++..++..|.+.|+.+.|+.-|.-+.+...
T Consensus       564 ~~il~~~~~~~eal~~LEeLk~~vP~es~v~~llgki~k~~~~~~~Al~~f~~A~~ldp  622 (638)
T KOG1126|consen  564 ASILFSLGRYVEALQELEELKELVPQESSVFALLGKIYKRLGNTDLALLHFSWALDLDP  622 (638)
T ss_pred             HHHHHhhcchHHHHHHHHHHHHhCcchHHHHHHHHHHHHHHccchHHHHhhHHHhcCCC
Confidence            77778899999999999999999999999999999999999999999999888877544

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.72  E-value=2.8e-14  Score=127.57  Aligned_cols=285  Identities=12%  Similarity=-0.002  Sum_probs=172.5

Q ss_pred             hhcHHHHHHHHHHHHHcCCCCcHHHH-HHHHHHHHhcCCHHHHHHHhhCCCCCchh--hHH--HHHHHHHhcCChHHHHH
Q 039362           76 LAKRELAVAVHAQIAKTGYESDLFIS-NSLIHMYGSCGDIVYAREVFDGMPTKMSV--SWN--SMLDGYAKCGEMNMARQ  150 (440)
Q Consensus        76 ~~~~~~a~~~~~~~~~~~~~~~~~~~-~~l~~~~~~~g~~~~a~~~~~~~~~~~~~--~~~--~l~~~~~~~~~~~~a~~  150 (440)
                      .|+++.|.+.+....+...  ++..+ ........+.|+++.|...+.++.+.++.  ...  .....+...|++++|.+
T Consensus        97 eGd~~~A~k~l~~~~~~~~--~p~l~~llaA~aA~~~g~~~~A~~~l~~A~~~~~~~~~~~~l~~a~l~l~~g~~~~Al~  174 (398)
T PRK10747         97 EGDYQQVEKLMTRNADHAE--QPVVNYLLAAEAAQQRGDEARANQHLERAAELADNDQLPVEITRVRIQLARNENHAARH  174 (398)
T ss_pred             CCCHHHHHHHHHHHHhccc--chHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHCCCHHHHHH
Confidence            5999999988887655432  23333 33345558899999999999998753321  111  12344455555555555


Q ss_pred             HHhhCCC--C-chhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCC
Q 039362          151 VFELMPE--R-NVVSWSALIDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLS  227 (440)
Q Consensus       151 ~~~~~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  227 (440)
                      .++.+.+  | ++.....+...|.+.|+|++|.+++..+.+.+..++. ....+-                         
T Consensus       175 ~l~~~~~~~P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~-~~~~l~-------------------------  228 (398)
T PRK10747        175 GVDKLLEVAPRHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEE-HRAMLE-------------------------  228 (398)
T ss_pred             HHHHHHhcCCCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHH-HHHHHH-------------------------
Confidence            5555443  1 3344444555555555555555555555444322111 111000                         


Q ss_pred             CchhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCC-chhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHH
Q 039362          228 LTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQS-DVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLS  306 (440)
Q Consensus       228 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~  306 (440)
                        ...+..++.......+.+...++++.+.+..| ++.....+...+...|+.++|.+++++..+.  +|+....  ++.
T Consensus       229 --~~a~~~l~~~~~~~~~~~~l~~~w~~lp~~~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~--~~~~~l~--~l~  302 (398)
T PRK10747        229 --QQAWIGLMDQAMADQGSEGLKRWWKNQSRKTRHQVALQVAMAEHLIECDDHDTAQQIILDGLKR--QYDERLV--LLI  302 (398)
T ss_pred             --HHHHHHHHHHHHHhcCHHHHHHHHHhCCHHHhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHHH--HHH
Confidence              01122222223333445555566666554433 5666777777788888888888888777663  4444222  233


Q ss_pred             HHHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcC-CCCccHhHHHHHHHHHHhcCChhHHH
Q 039362          307 ACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQM-PLEPTASMLGSLLTGCMNHGKLDLAE  385 (440)
Q Consensus       307 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p~~~~~~~l~~~~~~~g~~~~a~  385 (440)
                      +....++.+++.+..+...+.. +-|...+..+.+.+.+.+++++|.+.|+.. ...|+...+..+...+.+.|+.++|.
T Consensus       303 ~~l~~~~~~~al~~~e~~lk~~-P~~~~l~l~lgrl~~~~~~~~~A~~~le~al~~~P~~~~~~~La~~~~~~g~~~~A~  381 (398)
T PRK10747        303 PRLKTNNPEQLEKVLRQQIKQH-GDTPLLWSTLGQLLMKHGEWQEASLAFRAALKQRPDAYDYAWLADALDRLHKPEEAA  381 (398)
T ss_pred             hhccCCChHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCHHHHH
Confidence            3345578888888888777753 224555677788888888888888888887 67788888778888888888888888


Q ss_pred             HHHHHHHhcC
Q 039362          386 IVGKKLVELQ  395 (440)
Q Consensus       386 ~~~~~~~~~~  395 (440)
                      .++++...+-
T Consensus       382 ~~~~~~l~~~  391 (398)
T PRK10747        382 AMRRDGLMLT  391 (398)
T ss_pred             HHHHHHHhhh
Confidence            8888876643

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

Probab=99.72  E-value=4.2e-17  Score=139.39  Aligned_cols=260  Identities=16%  Similarity=0.153  Sum_probs=79.1

Q ss_pred             HHHHHHHccCChhhHHHHHHHHHHcC-CCCCcchHHHHHHHhhchhcHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhc
Q 039362           33 TVIRGYSKSKNPNKSISLFVKMLRAG-VSPDHLTYPFLAKASGRLAKRELAVAVHAQIAKTGYESDLFISNSLIHMYGSC  111 (440)
Q Consensus        33 ~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  111 (440)
                      .+...+.+.|++++|+++++...... .+.|...|..+...+...++++.|.+.++++...+.. ++..+..++.. ...
T Consensus        13 ~~A~~~~~~~~~~~Al~~L~~~~~~~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~~~-~~~~~~~l~~l-~~~   90 (280)
T PF13429_consen   13 RLARLLYQRGDYEKALEVLKKAAQKIAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASDKA-NPQDYERLIQL-LQD   90 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc-ccccccccccc-ccc
Confidence            33555666666666666664433332 1223344444555555666666666666666655433 44455555554 455


Q ss_pred             CCHHHHHHHhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHhhCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcC-
Q 039362          112 GDIVYAREVFDGMPTKMSVSWNSMLDGYAKCGEMNMARQVFELMPERNVVSWSALIDGYVKCGDYKEALVIFEEMRDVG-  190 (440)
Q Consensus       112 g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-  190 (440)
                      +++++|.++++..-+.+                             ++...+...+..+...++++++.++++.+.... 
T Consensus        91 ~~~~~A~~~~~~~~~~~-----------------------------~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~  141 (280)
T PF13429_consen   91 GDPEEALKLAEKAYERD-----------------------------GDPRYLLSALQLYYRLGDYDEAEELLEKLEELPA  141 (280)
T ss_dssp             --------------------------------------------------------H-HHHTT-HHHHHHHHHHHHH-T-
T ss_pred             ccccccccccccccccc-----------------------------cccchhhHHHHHHHHHhHHHHHHHHHHHHHhccC
Confidence            66666665554432211                             233444455555666666666666666654322 


Q ss_pred             CCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhcC-CchhhHHHH
Q 039362          191 SKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQ-SDVLIWNAM  269 (440)
Q Consensus       191 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~l  269 (440)
                      .+.+...|..+...+.+.|+.++|...+++.++.. |.+..+...++..+...|+.+++..++....+.. .|...+..+
T Consensus       142 ~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~-P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~~~~~~~~~~l  220 (280)
T PF13429_consen  142 APDSARFWLALAEIYEQLGDPDKALRDYRKALELD-PDDPDARNALAWLLIDMGDYDEAREALKRLLKAAPDDPDLWDAL  220 (280)
T ss_dssp             --T-HHHHHHHHHHHHHCCHHHHHHHHHHHHHHH--TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH-HTSCCHCHHH
T ss_pred             CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHCcCHHHHHHHH
Confidence            23344555555566666666666666666666654 4455566666666666666666666666555442 344555666


Q ss_pred             HHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHh
Q 039362          270 IGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLG  325 (440)
Q Consensus       270 ~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  325 (440)
                      ..++...|+.++|...|++..... +.|+.....+..++...|+.++|..+.+++.
T Consensus       221 a~~~~~lg~~~~Al~~~~~~~~~~-p~d~~~~~~~a~~l~~~g~~~~A~~~~~~~~  275 (280)
T PF13429_consen  221 AAAYLQLGRYEEALEYLEKALKLN-PDDPLWLLAYADALEQAGRKDEALRLRRQAL  275 (280)
T ss_dssp             HHHHHHHT-HHHHHHHHHHHHHHS-TT-HHHHHHHHHHHT----------------
T ss_pred             HHHhcccccccccccccccccccc-ccccccccccccccccccccccccccccccc
Confidence            666666666677777666666543 4455566666666666677766666666554

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

Probab=99.72  E-value=6.4e-14  Score=118.27  Aligned_cols=297  Identities=11%  Similarity=0.083  Sum_probs=130.1

Q ss_pred             CCChHHHHHHHHHHHccCChhhHHHHHHHHHHcCCCCCcchHHHHHHH-----------------------------hhc
Q 039362           25 NPRIFYWNTVIRGYSKSKNPNKSISLFVKMLRAGVSPDHLTYPFLAKA-----------------------------SGR   75 (440)
Q Consensus        25 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-----------------------------~~~   75 (440)
                      ..|...+-.....+.+.|....|++.|...... .+-.-..|..|...                             +..
T Consensus       161 ~~D~fllYL~Gvv~k~~~~~s~A~~sfv~~v~~-~P~~W~AWleL~~lit~~e~~~~l~~~l~~~~h~M~~~F~~~a~~e  239 (559)
T KOG1155|consen  161 EKDEFLLYLYGVVLKELGLLSLAIDSFVEVVNR-YPWFWSAWLELSELITDIEILSILVVGLPSDMHWMKKFFLKKAYQE  239 (559)
T ss_pred             cchhHHHHHHHHHHHhhchHHHHHHHHHHHHhc-CCcchHHHHHHHHhhchHHHHHHHHhcCcccchHHHHHHHHHHHHH
Confidence            445555555555566777778888777776542 12222223322222                             222


Q ss_pred             hhcHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhcCCHHHHHHHhhCCCCCc------hhhHHHHHHHHHhcCChHHHH
Q 039362           76 LAKRELAVAVHAQIAKTGYESDLFISNSLIHMYGSCGDIVYAREVFDGMPTKM------SVSWNSMLDGYAKCGEMNMAR  149 (440)
Q Consensus        76 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~------~~~~~~l~~~~~~~~~~~~a~  149 (440)
                      ....+++..-.+.....|++.+...-+....+.-...|+++|+.+|+++.+.|      ..+|..++-.-.....+.---
T Consensus       240 l~q~~e~~~k~e~l~~~gf~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~LYv~~~~skLs~LA  319 (559)
T KOG1155|consen  240 LHQHEEALQKKERLSSVGFPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVLYVKNDKSKLSYLA  319 (559)
T ss_pred             HHHHHHHHHHHHHHHhccCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHHHHHhhhHHHHHHH
Confidence            23334444444444444444333333333334444455555555555554322      223333322211111111111


Q ss_pred             HHHhhCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCc
Q 039362          150 QVFELMPERNVVSWSALIDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLT  229 (440)
Q Consensus       150 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  229 (440)
                      +..-.+.+-.+.|+..+.+-|.-.++.++|...|++..+.+ +.....++.+..-|...++...|.+-++..++.+ |.|
T Consensus       320 ~~v~~idKyR~ETCCiIaNYYSlr~eHEKAv~YFkRALkLN-p~~~~aWTLmGHEyvEmKNt~AAi~sYRrAvdi~-p~D  397 (559)
T KOG1155|consen  320 QNVSNIDKYRPETCCIIANYYSLRSEHEKAVMYFKRALKLN-PKYLSAWTLMGHEYVEMKNTHAAIESYRRAVDIN-PRD  397 (559)
T ss_pred             HHHHHhccCCccceeeehhHHHHHHhHHHHHHHHHHHHhcC-cchhHHHHHhhHHHHHhcccHHHHHHHHHHHhcC-chh
Confidence            11111112223334444444444444445555554444432 2223344444444444444444444444444444 444


Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCC-chhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHH
Q 039362          230 LPLQTSLIDMYAKCGAIKEALIVFHGVEKHQS-DVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSAC  308 (440)
Q Consensus       230 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~  308 (440)
                      -..|-.|.++|.-.+...=|+-+|++.....| |...|.+|..+|.+.++.++|++.|+.....| ..+...+..|...|
T Consensus       398 yRAWYGLGQaYeim~Mh~YaLyYfqkA~~~kPnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~-dte~~~l~~LakLy  476 (559)
T KOG1155|consen  398 YRAWYGLGQAYEIMKMHFYALYYFQKALELKPNDSRLWVALGECYEKLNRLEEAIKCYKRAILLG-DTEGSALVRLAKLY  476 (559)
T ss_pred             HHHHhhhhHHHHHhcchHHHHHHHHHHHhcCCCchHHHHHHHHHHHHhccHHHHHHHHHHHHhcc-ccchHHHHHHHHHH
Confidence            44444444444444444444444444444433 34444444444444445555555444444433 22334444444444


Q ss_pred             HcCCChHHHHHHHHHHh
Q 039362          309 AHGGLVMEAWYFFKSLG  325 (440)
Q Consensus       309 ~~~~~~~~a~~~~~~~~  325 (440)
                      .+.++..+|...|.+-+
T Consensus       477 e~l~d~~eAa~~yek~v  493 (559)
T KOG1155|consen  477 EELKDLNEAAQYYEKYV  493 (559)
T ss_pred             HHHHhHHHHHHHHHHHH
Confidence            44444444444444433

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.71  E-value=2.8e-13  Score=113.43  Aligned_cols=384  Identities=11%  Similarity=0.077  Sum_probs=259.9

Q ss_pred             hHHHHHHHHHHHccCChhhHHHHHHHHHHcCCCCCcchHHHHHHHh--hchhcHH-HHHHHHHHHHHcCCCCcHHHHHHH
Q 039362           28 IFYWNTVIRGYSKSKNPNKSISLFVKMLRAGVSPDHLTYPFLAKAS--GRLAKRE-LAVAVHAQIAKTGYESDLFISNSL  104 (440)
Q Consensus        28 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~--~~~~~~~-~a~~~~~~~~~~~~~~~~~~~~~l  104 (440)
                      +.+-|.|+. +..+|....+.-+|+.|.+.|++.++..-..|++.-  ....++- .-.+.|-.|...|-. +..+|   
T Consensus       116 V~~E~nL~k-mIS~~EvKDs~ilY~~m~~e~~~vS~kvq~~L~~LV~~~Ns~~~~~~E~~~Fv~~~~~~E~-S~~sW---  190 (625)
T KOG4422|consen  116 VETENNLLK-MISSREVKDSCILYERMRSENVDVSEKVQLELFRLVTYYNSSNVPFAEWEEFVGMRNFGED-STSSW---  190 (625)
T ss_pred             hcchhHHHH-HHhhcccchhHHHHHHHHhcCCCCCHHHHHHHHHHHHhhcCCCCcchhHHHHhhccccccc-ccccc---
Confidence            345555554 456788888888899998888777666554444332  2222222 222334444444322 22222   


Q ss_pred             HHHHHhcCCHHHHHHHhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHhhCCC----CchhhHHHHHHHHHhcCCHHHHH
Q 039362          105 IHMYGSCGDIVYAREVFDGMPTKMSVSWNSMLDGYAKCGEMNMARQVFELMPE----RNVVSWSALIDGYVKCGDYKEAL  180 (440)
Q Consensus       105 ~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~----~~~~~~~~l~~~~~~~~~~~~a~  180 (440)
                           +.|++.+   ++-+.......++..+|.++|+--..+.|.+++++...    -+..+||.+|.+-.-.    .-.
T Consensus       191 -----K~G~vAd---L~~E~~PKT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~----~~K  258 (625)
T KOG4422|consen  191 -----KSGAVAD---LLFETLPKTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYS----VGK  258 (625)
T ss_pred             -----ccccHHH---HHHhhcCCCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhh----ccH
Confidence                 4455444   44445555677999999999999999999999998764    4667888887654322    237


Q ss_pred             HHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHH----HHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHH-HHHHHhh
Q 039362          181 VIFEEMRDVGSKANEVTLVSVLCACAHLGALDQG----RMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKE-ALIVFHG  255 (440)
Q Consensus       181 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a----~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~-A~~~~~~  255 (440)
                      +++.+|....+.||..|++.++.+..+.|+++.|    .+++.+|.+.|+.|...+|..++..+.+.++..+ +..++.+
T Consensus       259 ~Lv~EMisqkm~Pnl~TfNalL~c~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~as~~i~d  338 (625)
T KOG4422|consen  259 KLVAEMISQKMTPNLFTFNALLSCAAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVASSWIND  338 (625)
T ss_pred             HHHHHHHHhhcCCchHhHHHHHHHHHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhhHHHHHH
Confidence            7899999999999999999999999999988755    5788899999999999999999999999888754 4445554


Q ss_pred             hhhc---------CC-chhhHHHHHHHHHhcCChHHHHHHHHHHHHcC----CCccH---hhHHHHHHHHHcCCChHHHH
Q 039362          256 VEKH---------QS-DVLIWNAMIGGLAMHGFVKESLELFTEMQIVG----ITPDE---ITFLGLLSACAHGGLVMEAW  318 (440)
Q Consensus       256 ~~~~---------~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~----~~p~~---~~~~~l~~~~~~~~~~~~a~  318 (440)
                      +...         .| +...|...+..|.+..+.+-|.++-.-+....    +.|+.   .-|..+....+.....+.-.
T Consensus       339 I~N~ltGK~fkp~~p~d~~FF~~AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~licq~es~~~~~  418 (625)
T KOG4422|consen  339 IQNSLTGKTFKPITPTDNKFFQSAMSICSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFFDLICQMESIDVTL  418 (625)
T ss_pred             HHHhhccCcccCCCCchhHHHHHHHHHHHHhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4322         23 45567778888888888888888766554321    33442   34667777788888899999


Q ss_pred             HHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcC---CCCccHhHHHHHHHHHHhcC----------------
Q 039362          319 YFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQM---PLEPTASMLGSLLTGCMNHG----------------  379 (440)
Q Consensus       319 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~---~~~p~~~~~~~l~~~~~~~g----------------  379 (440)
                      ..|+.|+-.-+-|+..+...++++..-.|+++-.-+++..+   +..-+......++..+++..                
T Consensus       419 ~~Y~~lVP~~y~p~~~~m~~~lrA~~v~~~~e~ipRiw~D~~~~ght~r~~l~eeil~~L~~~k~hp~tp~r~Ql~~~~a  498 (625)
T KOG4422|consen  419 KWYEDLVPSAYFPHSQTMIHLLRALDVANRLEVIPRIWKDSKEYGHTFRSDLREEILMLLARDKLHPLTPEREQLQVAFA  498 (625)
T ss_pred             HHHHHhccceecCCchhHHHHHHHHhhcCcchhHHHHHHHHHHhhhhhhHHHHHHHHHHHhcCCCCCCChHHHHHHHHHH
Confidence            99999998867788888888999988888888877777766   21112222222222222221                


Q ss_pred             ----ChhHHH-HHHHHHHhcCCCCCchHHHHHHHHHhccChHHHHHHHHHHHhcC
Q 039362          380 ----KLDLAE-IVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEARTTREAMETRG  429 (440)
Q Consensus       380 ----~~~~a~-~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  429 (440)
                          ++.++. ..-.++.+. .-.+......+..+.+.|+.++|.+++.-+.+.+
T Consensus       499 k~aad~~e~~e~~~~R~r~~-~~~~t~l~~ia~Ll~R~G~~qkA~e~l~l~~~~~  552 (625)
T KOG4422|consen  499 KCAADIKEAYESQPIRQRAQ-DWPATSLNCIAILLLRAGRTQKAWEMLGLFLRKH  552 (625)
T ss_pred             HHHHHHHHHHHhhHHHHHhc-cCChhHHHHHHHHHHHcchHHHHHHHHHHHHhcC
Confidence                111111 111122222 2233467788888999999999999999887654

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

Probab=99.71  E-value=4.6e-14  Score=118.99  Aligned_cols=185  Identities=9%  Similarity=0.084  Sum_probs=140.7

Q ss_pred             hcCCHHHHHHHHhhhhhcCCc-hhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHH
Q 039362          242 KCGAIKEALIVFHGVEKHQSD-VLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYF  320 (440)
Q Consensus       242 ~~g~~~~A~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~  320 (440)
                      ..|++++|.+.|++....... ....-.+.-.+-..|+.++|++.|-++..- +..+...+..+...|.-..+..+|+++
T Consensus       502 ~ngd~dka~~~ykeal~ndasc~ealfniglt~e~~~~ldeald~f~klh~i-l~nn~evl~qianiye~led~aqaie~  580 (840)
T KOG2003|consen  502 ANGDLDKAAEFYKEALNNDASCTEALFNIGLTAEALGNLDEALDCFLKLHAI-LLNNAEVLVQIANIYELLEDPAQAIEL  580 (840)
T ss_pred             ecCcHHHHHHHHHHHHcCchHHHHHHHHhcccHHHhcCHHHHHHHHHHHHHH-HHhhHHHHHHHHHHHHHhhCHHHHHHH
Confidence            468899999999988843221 222222334566789999999999887543 245667778888889889999999999


Q ss_pred             HHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcC-CCCc-cHhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCC
Q 039362          321 FKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQM-PLEP-TASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDH  398 (440)
Q Consensus       321 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~  398 (440)
                      +...... ++.|+.+...|...|-+.|+-..|.+..-+- ..-| +..+..-|..-|....=+++++.+|+++.-..|..
T Consensus       581 ~~q~~sl-ip~dp~ilskl~dlydqegdksqafq~~ydsyryfp~nie~iewl~ayyidtqf~ekai~y~ekaaliqp~~  659 (840)
T KOG2003|consen  581 LMQANSL-IPNDPAILSKLADLYDQEGDKSQAFQCHYDSYRYFPCNIETIEWLAAYYIDTQFSEKAINYFEKAALIQPNQ  659 (840)
T ss_pred             HHHhccc-CCCCHHHHHHHHHHhhcccchhhhhhhhhhcccccCcchHHHHHHHHHHHhhHHHHHHHHHHHHHHhcCccH
Confidence            9887663 4457788899999999999999998876554 4444 56666666666777777899999999998888876


Q ss_pred             CchHHHHHHHHHhccChHHHHHHHHHHHhc
Q 039362          399 DGRYVGLSNVYAIFKRWDEARTTREAMETR  428 (440)
Q Consensus       399 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  428 (440)
                      ...-..++.++.+.|++.+|.++++...++
T Consensus       660 ~kwqlmiasc~rrsgnyqka~d~yk~~hrk  689 (840)
T KOG2003|consen  660 SKWQLMIASCFRRSGNYQKAFDLYKDIHRK  689 (840)
T ss_pred             HHHHHHHHHHHHhcccHHHHHHHHHHHHHh
Confidence            655556677778899999999999988665

>TIGR00540 hemY_coli hemY protein

Probab=99.71  E-value=4e-14  Score=127.24  Aligned_cols=288  Identities=14%  Similarity=0.017  Sum_probs=160.0

Q ss_pred             hchhcHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhcCCHHHHHHHhhCCCC--Cch--hhHHHHHHHHHhcCChHHHH
Q 039362           74 GRLAKRELAVAVHAQIAKTGYESDLFISNSLIHMYGSCGDIVYAREVFDGMPT--KMS--VSWNSMLDGYAKCGEMNMAR  149 (440)
Q Consensus        74 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~--~~~--~~~~~l~~~~~~~~~~~~a~  149 (440)
                      ...|+++.|.+.+....+..+.| ...+-....++.+.|+.+.|.+.+.+..+  |+.  .........+...|+++.|.
T Consensus        95 ~~~g~~~~A~~~l~~~~~~~~~~-~~~~llaA~aa~~~g~~~~A~~~l~~a~~~~p~~~l~~~~~~a~l~l~~~~~~~Al  173 (409)
T TIGR00540        95 LAEGDYAKAEKLIAKNADHAAEP-VLNLIKAAEAAQQRGDEARANQHLEEAAELAGNDNILVEIARTRILLAQNELHAAR  173 (409)
T ss_pred             HhCCCHHHHHHHHHHHhhcCCCC-HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCcCchHHHHHHHHHHHHCCCHHHHH
Confidence            45688999999888877754332 23334456677788999999998888643  221  11122233444444444444


Q ss_pred             HHHhhCCC--C-chhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCC
Q 039362          150 QVFELMPE--R-NVVSWSALIDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGL  226 (440)
Q Consensus       150 ~~~~~~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  226 (440)
                      +.++.+.+  | +...+..+...+...|++++|.+.+..+.+.++.++......-..++                     
T Consensus       174 ~~l~~l~~~~P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~~~~~~~~l~~~a~---------------------  232 (409)
T TIGR00540       174 HGVDKLLEMAPRHKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLFDDEEFADLEQKAE---------------------  232 (409)
T ss_pred             HHHHHHHHhCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHH---------------------
Confidence            44444432  1 23344444444555555555555555544443221111100000000                     


Q ss_pred             CCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhc-CCchhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhh---HH
Q 039362          227 SLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKH-QSDVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEIT---FL  302 (440)
Q Consensus       227 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~---~~  302 (440)
                             ..++..-......+.....+...... ..+...+..+...+...|+.++|.+++++..+.  .||...   ..
T Consensus       233 -------~~~l~~~~~~~~~~~L~~~~~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~--~pd~~~~~~~~  303 (409)
T TIGR00540       233 -------IGLLDEAMADEGIDGLLNWWKNQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKK--LGDDRAISLPL  303 (409)
T ss_pred             -------HHHHHHHHHhcCHHHHHHHHHHCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhh--CCCcccchhHH
Confidence                   00000000111122222222222211 125566666777777777777777777777665  233321   11


Q ss_pred             HHHHHHHcCCChHHHHHHHHHHhhcCCCCC-c--chHHHHHHHHHhcCCHHHHHHHHhc--C-CCCccHhHHHHHHHHHH
Q 039362          303 GLLSACAHGGLVMEAWYFFKSLGKRGMVPK-S--EHYACMVDALSRAGQVTEAYEFICQ--M-PLEPTASMLGSLLTGCM  376 (440)
Q Consensus       303 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~--~~~~~l~~~~~~~~~~~~a~~~~~~--~-~~~p~~~~~~~l~~~~~  376 (440)
                      .........++.+.+.+.++...+..  |+ .  ....++...+.+.|++++|.+.|+.  . ...|+...+..+...+.
T Consensus       304 l~~~~~l~~~~~~~~~~~~e~~lk~~--p~~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~~~~~~La~ll~  381 (409)
T TIGR00540       304 CLPIPRLKPEDNEKLEKLIEKQAKNV--DDKPKCCINRALGQLLMKHGEFIEAADAFKNVAACKEQLDANDLAMAADAFD  381 (409)
T ss_pred             HHHhhhcCCCChHHHHHHHHHHHHhC--CCChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcCCCHHHHHHHHHHHH
Confidence            11122234466777788887777652  33 3  4556788888889999999998884  3 66788888888888888


Q ss_pred             hcCChhHHHHHHHHHHhc
Q 039362          377 NHGKLDLAEIVGKKLVEL  394 (440)
Q Consensus       377 ~~g~~~~a~~~~~~~~~~  394 (440)
                      +.|+.++|.+++++....
T Consensus       382 ~~g~~~~A~~~~~~~l~~  399 (409)
T TIGR00540       382 QAGDKAEAAAMRQDSLGL  399 (409)
T ss_pred             HcCCHHHHHHHHHHHHHH
Confidence            999999999999887653

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.

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

Probab=99.69  E-value=3.7e-13  Score=114.55  Aligned_cols=383  Identities=13%  Similarity=0.012  Sum_probs=257.3

Q ss_pred             ccccccCChhhHHHHhhhcC--CCC-hHHHHHHHHHHHccCChhhHHHHHHHHHHcCCCCC-cchHHHHHHHhhchhcHH
Q 039362            5 SALSYLGNIDYSCKVLSHLS--NPR-IFYWNTVIRGYSKSKNPNKSISLFVKMLRAGVSPD-HLTYPFLAKASGRLAKRE   80 (440)
Q Consensus         5 y~~~~~g~~~~A~~~~~~~~--~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~   80 (440)
                      |.+.  |.+++|++.+.+..  .|| +..|.....+|...|+|+++++--.+..+  +.|+ ...+..-..++-..|+++
T Consensus       125 ~f~~--kkY~eAIkyY~~AI~l~p~epiFYsNraAcY~~lgd~~~Vied~TkALE--l~P~Y~KAl~RRA~A~E~lg~~~  200 (606)
T KOG0547|consen  125 FFRN--KKYDEAIKYYTQAIELCPDEPIFYSNRAACYESLGDWEKVIEDCTKALE--LNPDYVKALLRRASAHEQLGKFD  200 (606)
T ss_pred             hhhc--ccHHHHHHHHHHHHhcCCCCchhhhhHHHHHHHHhhHHHHHHHHHHHhh--cCcHHHHHHHHHHHHHHhhccHH
Confidence            4455  99999999999865  566 88899999999999999999998888777  4465 334555566777778887


Q ss_pred             HHHHHHHHHHHc-CCCCcHHHHHHHHHHHHhcCCHHHHHHHhhCCCC---Cchh-----------------------hHH
Q 039362           81 LAVAVHAQIAKT-GYESDLFISNSLIHMYGSCGDIVYAREVFDGMPT---KMSV-----------------------SWN  133 (440)
Q Consensus        81 ~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~---~~~~-----------------------~~~  133 (440)
                      +|+.=..-..-. |+. |..+--.+=+.+-+.| ..++.+-+.+-..   |+..                       +..
T Consensus       201 eal~D~tv~ci~~~F~-n~s~~~~~eR~Lkk~a-~~ka~e~~k~nr~p~lPS~~fi~syf~sF~~~~~~~~~~~~~ksDa  278 (606)
T KOG0547|consen  201 EALFDVTVLCILEGFQ-NASIEPMAERVLKKQA-MKKAKEKLKENRPPVLPSATFIASYFGSFHADPKPLFDNKSDKSDA  278 (606)
T ss_pred             HHHHhhhHHHHhhhcc-cchhHHHHHHHHHHHH-HHHHHHhhcccCCCCCCcHHHHHHHHhhccccccccccCCCccchh
Confidence            765322222111 111 2111111111111111 1222222221111   1111                       111


Q ss_pred             HHHHHH----Hh-cCChHHHHHHHhhCCC-----C-----c------hhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC
Q 039362          134 SMLDGY----AK-CGEMNMARQVFELMPE-----R-----N------VVSWSALIDGYVKCGDYKEALVIFEEMRDVGSK  192 (440)
Q Consensus       134 ~l~~~~----~~-~~~~~~a~~~~~~~~~-----~-----~------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  192 (440)
                      .+..++    .. ...+.+|...+.+-..     +     |      ..+.......+.-.|+.-.|...|+..+.....
T Consensus       279 ~l~~~l~~l~~~~~e~Y~~a~~~~te~~~~~~~~~~~n~~d~~le~~A~al~~~gtF~fL~g~~~~a~~d~~~~I~l~~~  358 (606)
T KOG0547|consen  279 ALAEALEALEKGLEEGYLKAYDKATEECLGSESSLSVNEIDAELEYMAEALLLRGTFHFLKGDSLGAQEDFDAAIKLDPA  358 (606)
T ss_pred             hHHHHHHHHHhhCchhHHHHHHHHHHHhhhhhhhccccccchhHHHHHHHHHHhhhhhhhcCCchhhhhhHHHHHhcCcc
Confidence            111111    00 0123333333322110     1     1      111222222344568889999999999887533


Q ss_pred             CCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCC-chhhHHHHHH
Q 039362          193 ANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQS-DVLIWNAMIG  271 (440)
Q Consensus       193 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~  271 (440)
                      ++. .|..+...|....+.++....|+...+.+ +.++.+|..-.+.+.-.+++++|..-|++.....| +...|-.+..
T Consensus       359 ~~~-lyI~~a~~y~d~~~~~~~~~~F~~A~~ld-p~n~dvYyHRgQm~flL~q~e~A~aDF~Kai~L~pe~~~~~iQl~~  436 (606)
T KOG0547|consen  359 FNS-LYIKRAAAYADENQSEKMWKDFNKAEDLD-PENPDVYYHRGQMRFLLQQYEEAIADFQKAISLDPENAYAYIQLCC  436 (606)
T ss_pred             cch-HHHHHHHHHhhhhccHHHHHHHHHHHhcC-CCCCchhHhHHHHHHHHHHHHHHHHHHHHHhhcChhhhHHHHHHHH
Confidence            333 37778888999999999999999999988 77888888888888889999999999999998877 5778888888


Q ss_pred             HHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHhhcCCC-------CCcchHHHHHHHHH
Q 039362          272 GLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKRGMV-------PKSEHYACMVDALS  344 (440)
Q Consensus       272 ~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-------~~~~~~~~l~~~~~  344 (440)
                      +..+.+.+++++..|++..+. ++..+..|+.....+...++++.|.+.|+..++....       +.+.+-..++..-.
T Consensus       437 a~Yr~~k~~~~m~~Fee~kkk-FP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~LE~~~~~~~v~~~plV~Ka~l~~qw  515 (606)
T KOG0547|consen  437 ALYRQHKIAESMKTFEEAKKK-FPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIELEPREHLIIVNAAPLVHKALLVLQW  515 (606)
T ss_pred             HHHHHHHHHHHHHHHHHHHHh-CCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHhhccccccccccchhhhhhhHhhhch
Confidence            888999999999999999876 4555678999999999999999999999999875211       11112222322222


Q ss_pred             hcCCHHHHHHHHhcC-CCCccH-hHHHHHHHHHHhcCChhHHHHHHHHHHhcCCC
Q 039362          345 RAGQVTEAYEFICQM-PLEPTA-SMLGSLLTGCMNHGKLDLAEIVGKKLVELQPD  397 (440)
Q Consensus       345 ~~~~~~~a~~~~~~~-~~~p~~-~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  397 (440)
                       .+++..|..++++. .+.|.. ..+..|...-.+.|+.++|+++|++...+-..
T Consensus       516 -k~d~~~a~~Ll~KA~e~Dpkce~A~~tlaq~~lQ~~~i~eAielFEksa~lArt  569 (606)
T KOG0547|consen  516 -KEDINQAENLLRKAIELDPKCEQAYETLAQFELQRGKIDEAIELFEKSAQLART  569 (606)
T ss_pred             -hhhHHHHHHHHHHHHccCchHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHh
Confidence             38999999999998 778865 56888999999999999999999999876543

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

Probab=99.69  E-value=4.4e-13  Score=116.13  Aligned_cols=394  Identities=14%  Similarity=0.041  Sum_probs=277.7

Q ss_pred             hHHHHHHHHHHHccCChhhHHHHHHHHHHcCCCCCcchHHHHHHHhhchhcHHHHHHHHHHH----HHcC---------C
Q 039362           28 IFYWNTVIRGYSKSKNPNKSISLFVKMLRAGVSPDHLTYPFLAKASGRLAKRELAVAVHAQI----AKTG---------Y   94 (440)
Q Consensus        28 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~----~~~~---------~   94 (440)
                      +..--.+.+++.-.|++++|..+...-.-.  ..|..+......++.+..++++|..++...    ....         +
T Consensus        49 p~d~~~~aq~l~~~~~y~ra~~lit~~~le--~~d~~cryL~~~~l~~lk~~~~al~vl~~~~~~~~~f~yy~~~~~~~l  126 (611)
T KOG1173|consen   49 PADIYWLAQVLYLGRQYERAAHLITTYKLE--KRDIACRYLAAKCLVKLKEWDQALLVLGRGHVETNPFSYYEKDAANTL  126 (611)
T ss_pred             hHHHHHHHHHHHhhhHHHHHHHHHHHhhhh--hhhHHHHHHHHHHHHHHHHHHHHHHHhcccchhhcchhhcchhhhcee
Confidence            333334667777777888777777654322  245666666677777778888887777621    1100         0


Q ss_pred             CCcHH-----------HHHHHHHHHHhcCCHHHHHHHhhCCCCCchhhHHHHH---HHHH-----------------hc-
Q 039362           95 ESDLF-----------ISNSLIHMYGSCGDIVYAREVFDGMPTKMSVSWNSML---DGYA-----------------KC-  142 (440)
Q Consensus        95 ~~~~~-----------~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~---~~~~-----------------~~-  142 (440)
                      .+|..           .+-.-...|....+.++|...|.+....|...+..+.   ....                 -. 
T Consensus       127 ~~n~~~~~~~~~~essic~lRgk~y~al~n~~~ar~~Y~~Al~~D~~c~Ea~~~lvs~~mlt~~Ee~~ll~~l~~a~~~~  206 (611)
T KOG1173|consen  127 ELNSAGEDLMINLESSICYLRGKVYVALDNREEARDKYKEALLADAKCFEAFEKLVSAHMLTAQEEFELLESLDLAMLTK  206 (611)
T ss_pred             ccCcccccccccchhceeeeeeehhhhhccHHHHHHHHHHHHhcchhhHHHHHHHHHHHhcchhHHHHHHhcccHHhhhh
Confidence            01100           0001112333444566676666665544444333221   1110                 01 


Q ss_pred             CChHHHHHHHhhCC--------------------CCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHH
Q 039362          143 GEMNMARQVFELMP--------------------ERNVVSWSALIDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVL  202 (440)
Q Consensus       143 ~~~~~a~~~~~~~~--------------------~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  202 (440)
                      .+.+.....|+...                    +.+........+-+...+++.+..++.+...+.. ++....+..-|
T Consensus       207 ed~e~l~~lyel~~~k~~n~~~~~r~~~~sl~~l~~~~dll~~~ad~~y~~c~f~~c~kit~~lle~d-pfh~~~~~~~i  285 (611)
T KOG1173|consen  207 EDVERLEILYELKLCKNRNEESLTRNEDESLIGLAENLDLLAEKADRLYYGCRFKECLKITEELLEKD-PFHLPCLPLHI  285 (611)
T ss_pred             hHHHHHHHHHHhhhhhhccccccccCchhhhhhhhhcHHHHHHHHHHHHHcChHHHHHHHhHHHHhhC-CCCcchHHHHH
Confidence            11122222232110                    0233445555667778899999999999998875 66777777777


Q ss_pred             HHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCCc-hhhHHHHHHHHHhcCChHH
Q 039362          203 CACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQSD-VLIWNAMIGGLAMHGFVKE  281 (440)
Q Consensus       203 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~  281 (440)
                      .++...|+..+-..+-..+++.- |..+.+|-++...|...|+..+|+++|.+.....|. ...|-....+|+-.|..++
T Consensus       286 a~l~el~~~n~Lf~lsh~LV~~y-P~~a~sW~aVg~YYl~i~k~seARry~SKat~lD~~fgpaWl~fghsfa~e~EhdQ  364 (611)
T KOG1173|consen  286 ACLYELGKSNKLFLLSHKLVDLY-PSKALSWFAVGCYYLMIGKYSEARRYFSKATTLDPTFGPAWLAFGHSFAGEGEHDQ  364 (611)
T ss_pred             HHHHHhcccchHHHHHHHHHHhC-CCCCcchhhHHHHHHHhcCcHHHHHHHHHHhhcCccccHHHHHHhHHhhhcchHHH
Confidence            78889999888888888888775 778889999999999999999999999999876664 6789999999999999999


Q ss_pred             HHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHhhcCCCC-CcchHHHHHHHHHhcCCHHHHHHHHhcCC
Q 039362          282 SLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVP-KSEHYACMVDALSRAGQVTEAYEFICQMP  360 (440)
Q Consensus       282 a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  360 (440)
                      |+..+....+. ++-....+..+.--|.+.++.+.|.++|.++...  .| |+...+.+.-.....+.+.+|..+|+..-
T Consensus       365 AmaaY~tAarl-~~G~hlP~LYlgmey~~t~n~kLAe~Ff~~A~ai--~P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l  441 (611)
T KOG1173|consen  365 AMAAYFTAARL-MPGCHLPSLYLGMEYMRTNNLKLAEKFFKQALAI--APSDPLVLHELGVVAYTYEEYPEALKYFQKAL  441 (611)
T ss_pred             HHHHHHHHHHh-ccCCcchHHHHHHHHHHhccHHHHHHHHHHHHhc--CCCcchhhhhhhheeehHhhhHHHHHHHHHHH
Confidence            99999887654 1222223444555678899999999999998874  44 66777777777778899999999998761


Q ss_pred             -----C---Cc-cHhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCCchHHHHHHHHHhccChHHHHHHHHHHHhc
Q 039362          361 -----L---EP-TASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEARTTREAMETR  428 (440)
Q Consensus       361 -----~---~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  428 (440)
                           +   .+ -..+++.|++++.+.+.+++|+..+++++.+.|.+..++.+++-.|...|+++.|.+.|.+.+-.
T Consensus       442 ~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eAI~~~q~aL~l~~k~~~~~asig~iy~llgnld~Aid~fhKaL~l  518 (611)
T KOG1173|consen  442 EVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEAIDYYQKALLLSPKDASTHASIGYIYHLLGNLDKAIDHFHKALAL  518 (611)
T ss_pred             HHhhhccccccchhHHHHhHHHHHHHHhhHHHHHHHHHHHHHcCCCchhHHHHHHHHHHHhcChHHHHHHHHHHHhc
Confidence                 1   11 34678999999999999999999999999999999999999999999999999999999887654

>TIGR00540 hemY_coli hemY protein

Probab=99.68  E-value=1.6e-13  Score=123.41  Aligned_cols=285  Identities=12%  Similarity=0.014  Sum_probs=175.6

Q ss_pred             HccCChhhHHHHHHHHHHcCCCCCcch-HHHHHHHhhchhcHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhcCCHHHH
Q 039362           39 SKSKNPNKSISLFVKMLRAGVSPDHLT-YPFLAKASGRLAKRELAVAVHAQIAKTGYESDLFISNSLIHMYGSCGDIVYA  117 (440)
Q Consensus        39 ~~~~~~~~a~~~~~~~~~~~~~~~~~~-~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a  117 (440)
                      ...|+++.|.+.+.+..+.  .|++.. +.....+..+.|+++.|.+.+.+..+..+.+...+.......+...|+++.|
T Consensus        95 ~~~g~~~~A~~~l~~~~~~--~~~~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~~p~~~l~~~~~~a~l~l~~~~~~~A  172 (409)
T TIGR00540        95 LAEGDYAKAEKLIAKNADH--AAEPVLNLIKAAEAAQQRGDEARANQHLEEAAELAGNDNILVEIARTRILLAQNELHAA  172 (409)
T ss_pred             HhCCCHHHHHHHHHHHhhc--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCcCchHHHHHHHHHHHHCCCHHHH
Confidence            4567777777777766553  344333 3333455666777777777777776654333333444456667777777777


Q ss_pred             HHHhhCCCC---CchhhHHHHHHHHHhcCChHHHHHHHhhCCC---CchhhHHH----HHHHHHhcCCHHHHHHHHHHHH
Q 039362          118 REVFDGMPT---KMSVSWNSMLDGYAKCGEMNMARQVFELMPE---RNVVSWSA----LIDGYVKCGDYKEALVIFEEMR  187 (440)
Q Consensus       118 ~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~----l~~~~~~~~~~~~a~~~~~~~~  187 (440)
                      ...++.+.+   .+......+...+...|++++|.+.+..+.+   .+...+..    ........+..++..+.+..+.
T Consensus       173 l~~l~~l~~~~P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~~l~~~~~~~~~~~L~~~~  252 (409)
T TIGR00540       173 RHGVDKLLEMAPRHKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLFDDEEFADLEQKAEIGLLDEAMADEGIDGLLNWW  252 (409)
T ss_pred             HHHHHHHHHhCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHH
Confidence            777776654   2445666777777777777777777777664   22222211    1111122233333334444444


Q ss_pred             hcCC---CCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhh--HHHHHHHHHhcCCHHHHHHHHhhhhhcCCc
Q 039362          188 DVGS---KANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPL--QTSLIDMYAKCGAIKEALIVFHGVEKHQSD  262 (440)
Q Consensus       188 ~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~--~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  262 (440)
                      ....   +.+...+..+...+...|+.++|...+++..+.. +.+...  ...........++.+.+...++...+..|+
T Consensus       253 ~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~~-pd~~~~~~~~l~~~~~l~~~~~~~~~~~~e~~lk~~p~  331 (409)
T TIGR00540       253 KNQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKKL-GDDRAISLPLCLPIPRLKPEDNEKLEKLIEKQAKNVDD  331 (409)
T ss_pred             HHCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhhC-CCcccchhHHHHHhhhcCCCChHHHHHHHHHHHHhCCC
Confidence            3321   1366677777777888888888888888877764 222211  111122223346777788888777766664


Q ss_pred             h---hhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHhh
Q 039362          263 V---LIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGK  326 (440)
Q Consensus       263 ~---~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  326 (440)
                      .   ....++...+.+.|++++|.+.|+........|+...+..+...+.+.|+.++|.+++++...
T Consensus       332 ~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~~~~~~La~ll~~~g~~~~A~~~~~~~l~  398 (409)
T TIGR00540       332 KPKCCINRALGQLLMKHGEFIEAADAFKNVAACKEQLDANDLAMAADAFDQAGDKAEAAAMRQDSLG  398 (409)
T ss_pred             ChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            3   445677778888888888888888544433467777777888888888888888888887654

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.

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

Probab=99.68  E-value=2.2e-14  Score=126.55  Aligned_cols=282  Identities=11%  Similarity=0.069  Sum_probs=167.2

Q ss_pred             ChhhHHHHHHHHHHcCCCCCcchHHHHHHHhhchhcHHHHHHHHHHHHHcCC--CCcHHHHHHHHHHHHhcCCHHHHHHH
Q 039362           43 NPNKSISLFVKMLRAGVSPDHLTYPFLAKASGRLAKRELAVAVHAQIAKTGY--ESDLFISNSLIHMYGSCGDIVYAREV  120 (440)
Q Consensus        43 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~a~~~  120 (440)
                      +..+|+..|+....+ +.-+......+..+|...+++++|.++|+.+.+..+  ..+..+|.+.+.-+-+.-...---+-
T Consensus       334 ~~~~A~~~~~klp~h-~~nt~wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~~v~Ls~Laq~  412 (638)
T KOG1126|consen  334 NCREALNLFEKLPSH-HYNTGWVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQDEVALSYLAQD  412 (638)
T ss_pred             HHHHHHHHHHhhHHh-cCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHhhHHHHHHHHH
Confidence            456777777774443 333445556667777777788888888877776532  12455666665533322211111111


Q ss_pred             hhCCCCCchhhHHHHHHHHHhcCChHHHHHHHhhCCCC---chhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHH
Q 039362          121 FDGMPTKMSVSWNSMLDGYAKCGEMNMARQVFELMPER---NVVSWSALIDGYVKCGDYKEALVIFEEMRDVGSKANEVT  197 (440)
Q Consensus       121 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  197 (440)
                      +-......+.+|.++.++|.-+++.+.|++.|++..+-   ...+|+.+..-+.....+|.|...|+..+... +-+-..
T Consensus       413 Li~~~~~sPesWca~GNcfSLQkdh~~Aik~f~RAiQldp~faYayTLlGhE~~~~ee~d~a~~~fr~Al~~~-~rhYnA  491 (638)
T KOG1126|consen  413 LIDTDPNSPESWCALGNCFSLQKDHDTAIKCFKRAIQLDPRFAYAYTLLGHESIATEEFDKAMKSFRKALGVD-PRHYNA  491 (638)
T ss_pred             HHhhCCCCcHHHHHhcchhhhhhHHHHHHHHHHHhhccCCccchhhhhcCChhhhhHHHHhHHHHHHhhhcCC-chhhHH
Confidence            11222234567777777777777777777777776652   34556666666666667777777776665321 112233


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCC-chhhHHHHHHHHHhc
Q 039362          198 LVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQS-DVLIWNAMIGGLAMH  276 (440)
Q Consensus       198 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~  276 (440)
                      |.-+...|.+.++++.|+-.|+++.+.+ |.+.+....+...+.+.|+.++|+.+++++...+| |+..--..+..+...
T Consensus       492 wYGlG~vy~Kqek~e~Ae~~fqkA~~IN-P~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~kn~l~~~~~~~il~~~  570 (638)
T KOG1126|consen  492 WYGLGTVYLKQEKLEFAEFHFQKAVEIN-PSNSVILCHIGRIQHQLKRKDKALQLYEKAIHLDPKNPLCKYHRASILFSL  570 (638)
T ss_pred             HHhhhhheeccchhhHHHHHHHhhhcCC-ccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCCCCchhHHHHHHHHHhh
Confidence            4445556667777777777777776665 55566666666666777777777777776665544 444444555566666


Q ss_pred             CChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHhhcC
Q 039362          277 GFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKRG  328 (440)
Q Consensus       277 ~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  328 (440)
                      +++++|+..++++++. ++-+...|..+...|.+.|+.+.|..-|.-+.+..
T Consensus       571 ~~~~eal~~LEeLk~~-vP~es~v~~llgki~k~~~~~~~Al~~f~~A~~ld  621 (638)
T KOG1126|consen  571 GRYVEALQELEELKEL-VPQESSVFALLGKIYKRLGNTDLALLHFSWALDLD  621 (638)
T ss_pred             cchHHHHHHHHHHHHh-CcchHHHHHHHHHHHHHHccchHHHHhhHHHhcCC
Confidence            6777777777776654 12233456666666666777777766666665543

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

Probab=99.66  E-value=2.7e-13  Score=109.34  Aligned_cols=230  Identities=14%  Similarity=0.093  Sum_probs=102.3

Q ss_pred             HHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCCch------hhHHHHHHHHHh
Q 039362          202 LCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQSDV------LIWNAMIGGLAM  275 (440)
Q Consensus       202 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~------~~~~~l~~~~~~  275 (440)
                      ..-|...|-+|.|+.+|..+.+.+ ..-......|+..|-...+|++|+++-+++.+.++..      ..|..+...+..
T Consensus       114 ~~Dym~aGl~DRAE~~f~~L~de~-efa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~  192 (389)
T COG2956         114 GRDYMAAGLLDRAEDIFNQLVDEG-EFAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALA  192 (389)
T ss_pred             HHHHHHhhhhhHHHHHHHHHhcch-hhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhh
Confidence            334444444555555554444433 2223344444555555555555555544444332211      123334444444


Q ss_pred             cCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHH
Q 039362          276 HGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEF  355 (440)
Q Consensus       276 ~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  355 (440)
                      ..+.+.|..++++..+.+ +.....=..+.+.....|+++.|.+.++.+.+.+..--..+...|..+|...|+.++...+
T Consensus       193 ~~~~d~A~~~l~kAlqa~-~~cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~~~~~~~f  271 (389)
T COG2956         193 SSDVDRARELLKKALQAD-KKCVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEMLYECYAQLGKPAEGLNF  271 (389)
T ss_pred             hhhHHHHHHHHHHHHhhC-ccceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCCHHHHHHH
Confidence            455555555555554432 1122222233444445555555555555555543322333444555555555555555555


Q ss_pred             HhcC-CCCccHhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCCchHHHHHHHH-H--hccChHHHHHHHHHHHhcCCc
Q 039362          356 ICQM-PLEPTASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVY-A--IFKRWDEARTTREAMETRGVK  431 (440)
Q Consensus       356 ~~~~-~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~-~--~~g~~~~A~~~~~~~~~~~~~  431 (440)
                      +.++ ...+.......+........-.+.|..++.+-+...|.-.. +..++..- .  ..|++.+-+..+..|+...++
T Consensus       272 L~~~~~~~~g~~~~l~l~~lie~~~G~~~Aq~~l~~Ql~r~Pt~~g-f~rl~~~~l~daeeg~~k~sL~~lr~mvge~l~  350 (389)
T COG2956         272 LRRAMETNTGADAELMLADLIELQEGIDAAQAYLTRQLRRKPTMRG-FHRLMDYHLADAEEGRAKESLDLLRDMVGEQLR  350 (389)
T ss_pred             HHHHHHccCCccHHHHHHHHHHHhhChHHHHHHHHHHHhhCCcHHH-HHHHHHhhhccccccchhhhHHHHHHHHHHHHh
Confidence            5554 33333333333333333333344455554444444444322 22222222 1  124455555556666555444


Q ss_pred             cCC
Q 039362          432 KYP  434 (440)
Q Consensus       432 ~~~  434 (440)
                      ..|
T Consensus       351 ~~~  353 (389)
T COG2956         351 RKP  353 (389)
T ss_pred             hcC
Confidence            444

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

Probab=99.65  E-value=5.9e-13  Score=107.46  Aligned_cols=281  Identities=14%  Similarity=0.136  Sum_probs=143.1

Q ss_pred             cCChhhHHHHHHHHHHcCCCCCcchHHHHHHHhhchhcHHHHHHHHHHHHHcCCCCc---HHHHHHHHHHHHhcCCHHHH
Q 039362           41 SKNPNKSISLFVKMLRAGVSPDHLTYPFLAKASGRLAKRELAVAVHAQIAKTGYESD---LFISNSLIHMYGSCGDIVYA  117 (440)
Q Consensus        41 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~g~~~~a  117 (440)
                      +.++++|+++|-+|.+.. +-+..+..+|.+.|.+.|..+.|+++.+.+.++.--+.   ......|..-|...|-+|.|
T Consensus        48 s~Q~dKAvdlF~e~l~~d-~~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~spdlT~~qr~lAl~qL~~Dym~aGl~DRA  126 (389)
T COG2956          48 SNQPDKAVDLFLEMLQED-PETFEAHLTLGNLFRSRGEVDRAIRIHQTLLESPDLTFEQRLLALQQLGRDYMAAGLLDRA  126 (389)
T ss_pred             hcCcchHHHHHHHHHhcC-chhhHHHHHHHHHHHhcchHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHHhhhhhHH
Confidence            456677777777776631 22334455566667777777777777776665421111   12334455556666666666


Q ss_pred             HHHhhCCCCCc---hhhHHHHHHHHHhcCChHHHHHHHhhCCCCch--------hhHHHHHHHHHhcCCHHHHHHHHHHH
Q 039362          118 REVFDGMPTKM---SVSWNSMLDGYAKCGEMNMARQVFELMPERNV--------VSWSALIDGYVKCGDYKEALVIFEEM  186 (440)
Q Consensus       118 ~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--------~~~~~l~~~~~~~~~~~~a~~~~~~~  186 (440)
                      +.+|..+.+.+   ......|+..|....+|++|+++-+++.+-+.        ..|-.+...+....+++.|..++.+.
T Consensus       127 E~~f~~L~de~efa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~~~~~d~A~~~l~kA  206 (389)
T COG2956         127 EDIFNQLVDEGEFAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALASSDVDRARELLKKA  206 (389)
T ss_pred             HHHHHHHhcchhhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHH
Confidence            66666665522   22444555566666666666655554433211        12333344444445555566665555


Q ss_pred             HhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCCchhhH
Q 039362          187 RDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQSDVLIW  266 (440)
Q Consensus       187 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~  266 (440)
                      .+.+ +.....-..+.......|+++.|.+.++.+.+.+...-+.+...|..+|...|+.++....+.++.+..+....-
T Consensus       207 lqa~-~~cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~~~~~~~fL~~~~~~~~g~~~~  285 (389)
T COG2956         207 LQAD-KKCVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEMLYECYAQLGKPAEGLNFLRRAMETNTGADAE  285 (389)
T ss_pred             HhhC-ccceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHccCCccHH
Confidence            5442 112222223334455556666666666666555544445555555566666666666666555555544444444


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHc---CCChHHHHHHHHHHh
Q 039362          267 NAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAH---GGLVMEAWYFFKSLG  325 (440)
Q Consensus       267 ~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~---~~~~~~a~~~~~~~~  325 (440)
                      ..+...-....-.+.|...+.+-...  +|+...+..++.....   .|...+....++.|.
T Consensus       286 l~l~~lie~~~G~~~Aq~~l~~Ql~r--~Pt~~gf~rl~~~~l~daeeg~~k~sL~~lr~mv  345 (389)
T COG2956         286 LMLADLIELQEGIDAAQAYLTRQLRR--KPTMRGFHRLMDYHLADAEEGRAKESLDLLRDMV  345 (389)
T ss_pred             HHHHHHHHHhhChHHHHHHHHHHHhh--CCcHHHHHHHHHhhhccccccchhhhHHHHHHHH
Confidence            44444333333444444444443332  4555555555554432   223334444444444

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

Probab=99.62  E-value=3.8e-12  Score=106.01  Aligned_cols=284  Identities=13%  Similarity=0.096  Sum_probs=204.0

Q ss_pred             ccCChhhHHHHHHHHHHcCCCCCcchHHHHHHHhhchhcHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhcCCHHHHHH
Q 039362           40 KSKNPNKSISLFVKMLRAGVSPDHLTYPFLAKASGRLAKRELAVAVHAQIAKTGYESDLFISNSLIHMYGSCGDIVYARE  119 (440)
Q Consensus        40 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~  119 (440)
                      -.|+|.+|.++..+..+.+-.| ...|..-+.+.-+.|+.+.+-.++.++.+....++....-+........|+++.|..
T Consensus        96 ~eG~~~qAEkl~~rnae~~e~p-~l~~l~aA~AA~qrgd~~~an~yL~eaae~~~~~~l~v~ltrarlll~~~d~~aA~~  174 (400)
T COG3071          96 FEGDFQQAEKLLRRNAEHGEQP-VLAYLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLLLNRRDYPAARE  174 (400)
T ss_pred             hcCcHHHHHHHHHHhhhcCcch-HHHHHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHHHhCCCchhHHH
Confidence            3688888888888877665322 233555566777788888888888888876445666677777788888888888887


Q ss_pred             HhhCCC---CCchhhHHHHHHHHHhcCChHHHHHHHhhCCCC-----------chhhHHHHHHHHHhcCCHHHHHHHHHH
Q 039362          120 VFDGMP---TKMSVSWNSMLDGYAKCGEMNMARQVFELMPER-----------NVVSWSALIDGYVKCGDYKEALVIFEE  185 (440)
Q Consensus       120 ~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----------~~~~~~~l~~~~~~~~~~~~a~~~~~~  185 (440)
                      -.+++.   ..++........+|.+.|++.....++..+.+.           ...+|+.+++-....+..+.-...++.
T Consensus       175 ~v~~ll~~~pr~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~le~~a~~glL~q~~~~~~~~gL~~~W~~  254 (400)
T COG3071         175 NVDQLLEMTPRHPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAARLEQQAWEGLLQQARDDNGSEGLKTWWKN  254 (400)
T ss_pred             HHHHHHHhCcCChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHHhccccchHHHHHHHh
Confidence            776554   356677888888888888888888888887752           123677777666666666666666666


Q ss_pred             HHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCC-chh
Q 039362          186 MRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQS-DVL  264 (440)
Q Consensus       186 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~  264 (440)
                      .... .+.++.....++.-+.+.|+.++|.++..+..+++..++.    ...-...+-++...-++..+.-.+..| ++.
T Consensus       255 ~pr~-lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~L----~~~~~~l~~~d~~~l~k~~e~~l~~h~~~p~  329 (400)
T COG3071         255 QPRK-LRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPRL----CRLIPRLRPGDPEPLIKAAEKWLKQHPEDPL  329 (400)
T ss_pred             ccHH-hhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChhH----HHHHhhcCCCCchHHHHHHHHHHHhCCCChh
Confidence            5443 3445666667777788888888888888888887766551    112233455666666666666554444 567


Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHhhcCCCC
Q 039362          265 IWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVP  331 (440)
Q Consensus       265 ~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  331 (440)
                      .+.++...|.+.+.|.+|.+.|+...+.  .|+..+|+.+..++.+.|+..+|.+..++....-..|
T Consensus       330 L~~tLG~L~~k~~~w~kA~~~leaAl~~--~~s~~~~~~la~~~~~~g~~~~A~~~r~e~L~~~~~~  394 (400)
T COG3071         330 LLSTLGRLALKNKLWGKASEALEAALKL--RPSASDYAELADALDQLGEPEEAEQVRREALLLTRQP  394 (400)
T ss_pred             HHHHHHHHHHHhhHHHHHHHHHHHHHhc--CCChhhHHHHHHHHHHcCChHHHHHHHHHHHHHhcCC
Confidence            7888888888888888888888876664  7888888888888888888888888888776543333

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

Probab=99.62  E-value=6.2e-12  Score=104.72  Aligned_cols=279  Identities=15%  Similarity=0.059  Sum_probs=193.8

Q ss_pred             cCCHHHHHHHhhCCCCC---chhhHHHHHHHHHhcCChHHHHHHHhhCCCC----chhhHHHHHHHHHhcCCHHHHHHHH
Q 039362          111 CGDIVYAREVFDGMPTK---MSVSWNSMLDGYAKCGEMNMARQVFELMPER----NVVSWSALIDGYVKCGDYKEALVIF  183 (440)
Q Consensus       111 ~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~~~l~~~~~~~~~~~~a~~~~  183 (440)
                      .|++.+|++...+..+.   ....|..-..+..+.|+.+.+-..+.++.++    +....-.........|+++.|..-+
T Consensus        97 eG~~~qAEkl~~rnae~~e~p~l~~l~aA~AA~qrgd~~~an~yL~eaae~~~~~~l~v~ltrarlll~~~d~~aA~~~v  176 (400)
T COG3071          97 EGDFQQAEKLLRRNAEHGEQPVLAYLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLLLNRRDYPAARENV  176 (400)
T ss_pred             cCcHHHHHHHHHHhhhcCcchHHHHHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHHHhCCCchhHHHHH
Confidence            46677777666554432   2334444455566667777777777666542    3344555666777788888888888


Q ss_pred             HHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchh-------hHHHHHHHHHhcCCHHHHHHHHhhh
Q 039362          184 EEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLP-------LQTSLIDMYAKCGAIKEALIVFHGV  256 (440)
Q Consensus       184 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-------~~~~l~~~~~~~g~~~~A~~~~~~~  256 (440)
                      .++.+.+ +.+.........+|.+.|++.....++..+.+.+.-.+..       ++..++.-....+..+.-...++..
T Consensus       177 ~~ll~~~-pr~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~le~~a~~glL~q~~~~~~~~gL~~~W~~~  255 (400)
T COG3071         177 DQLLEMT-PRHPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAARLEQQAWEGLLQQARDDNGSEGLKTWWKNQ  255 (400)
T ss_pred             HHHHHhC-cCChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHHhccccchHHHHHHHhc
Confidence            8877765 4456677777788888888888888888888877554433       4455555555555555556677766


Q ss_pred             hhc-CCchhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCCcch
Q 039362          257 EKH-QSDVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEH  335 (440)
Q Consensus       257 ~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  335 (440)
                      +.. ..++..-..++.-+.+.|+.++|.++.++..+.+..|+   ... .-.+.+.++...-++..+.-.+.. +-++..
T Consensus       256 pr~lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~---L~~-~~~~l~~~d~~~l~k~~e~~l~~h-~~~p~L  330 (400)
T COG3071         256 PRKLRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPR---LCR-LIPRLRPGDPEPLIKAAEKWLKQH-PEDPLL  330 (400)
T ss_pred             cHHhhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChh---HHH-HHhhcCCCCchHHHHHHHHHHHhC-CCChhH
Confidence            644 33566667778888888888899888888888776665   222 224566777777777777666642 224467


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHhcC-CCCccHhHHHHHHHHHHhcCChhHHHHHHHHHHhcC
Q 039362          336 YACMVDALSRAGQVTEAYEFICQM-PLEPTASMLGSLLTGCMNHGKLDLAEIVGKKLVELQ  395 (440)
Q Consensus       336 ~~~l~~~~~~~~~~~~a~~~~~~~-~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  395 (440)
                      +..|...|.+.+.+.+|.+.|+.. +..|+..+|+.+..++.+.|++.+|.+..++.....
T Consensus       331 ~~tLG~L~~k~~~w~kA~~~leaAl~~~~s~~~~~~la~~~~~~g~~~~A~~~r~e~L~~~  391 (400)
T COG3071         331 LSTLGRLALKNKLWGKASEALEAALKLRPSASDYAELADALDQLGEPEEAEQVRREALLLT  391 (400)
T ss_pred             HHHHHHHHHHhhHHHHHHHHHHHHHhcCCChhhHHHHHHHHHHcCChHHHHHHHHHHHHHh
Confidence            778888888888888888888876 778888888888888888888888888888877543

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

Probab=99.61  E-value=9.9e-14  Score=112.04  Aligned_cols=229  Identities=12%  Similarity=0.003  Sum_probs=200.4

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCCchhh-HHHHHHHHHhc
Q 039362          198 LVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQSDVLI-WNAMIGGLAMH  276 (440)
Q Consensus       198 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~-~~~l~~~~~~~  276 (440)
                      -..+..+|.+.|-+.+|.+.++..++.  .|.+.+|..|..+|.+..++..|+.+|.+..+..|-.++ ...+...+-..
T Consensus       226 k~Q~gkCylrLgm~r~AekqlqssL~q--~~~~dTfllLskvY~ridQP~~AL~~~~~gld~fP~~VT~l~g~ARi~eam  303 (478)
T KOG1129|consen  226 KQQMGKCYLRLGMPRRAEKQLQSSLTQ--FPHPDTFLLLSKVYQRIDQPERALLVIGEGLDSFPFDVTYLLGQARIHEAM  303 (478)
T ss_pred             HHHHHHHHHHhcChhhhHHHHHHHhhc--CCchhHHHHHHHHHHHhccHHHHHHHHhhhhhcCCchhhhhhhhHHHHHHH
Confidence            456888999999999999999998876  567778999999999999999999999999888785554 45677788888


Q ss_pred             CChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHH
Q 039362          277 GFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFI  356 (440)
Q Consensus       277 ~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  356 (440)
                      ++.++|.++++...+.. +.+.....++...|...++++-|..+|+++...|+. +...|+.+.-+|...++++-++.-|
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            99999999999988764 556667777888888999999999999999999864 7889999999999999999999998


Q ss_pred             hcC---CCCcc--HhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCCchHHHHHHHHHhccChHHHHHHHHHHHhcCC
Q 039362          357 CQM---PLEPT--ASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEARTTREAMETRGV  430 (440)
Q Consensus       357 ~~~---~~~p~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  430 (440)
                      ++.   --.|+  ..+|..+.......||+..|.+.|+-++..++++...++.|+..-.+.|+.++|+.+++......+
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 QRALSTATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSDAQHGEALNNLAVLAARSGDILGARSLLNAAKSVMP  460 (478)
T ss_pred             HHHHhhccCcchhhhhhhccceeEEeccchHHHHHHHHHHhccCcchHHHHHhHHHHHhhcCchHHHHHHHHHhhhhCc
Confidence            887   22343  478999999999999999999999999999999999999999999999999999999998877544

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.58  E-value=1.5e-12  Score=108.69  Aligned_cols=198  Identities=11%  Similarity=0.049  Sum_probs=151.0

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCC-chhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHH
Q 039362          230 LPLQTSLIDMYAKCGAIKEALIVFHGVEKHQS-DVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSAC  308 (440)
Q Consensus       230 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~  308 (440)
                      ...+..+...+...|++++|...+++..+..| +...+..+...+...|++++|.+.+++..+.. +.+...+..+...+
T Consensus        31 ~~~~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~~~~~  109 (234)
T TIGR02521        31 AKIRVQLALGYLEQGDLEVAKENLDKALEHDPDDYLAYLALALYYQQLGELEKAEDSFRRALTLN-PNNGDVLNNYGTFL  109 (234)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHH
Confidence            45566677777777888888888777766555 35566777777788888888888888877654 34455666777777


Q ss_pred             HcCCChHHHHHHHHHHhhcCCC-CCcchHHHHHHHHHhcCCHHHHHHHHhcC-CCCc-cHhHHHHHHHHHHhcCChhHHH
Q 039362          309 AHGGLVMEAWYFFKSLGKRGMV-PKSEHYACMVDALSRAGQVTEAYEFICQM-PLEP-TASMLGSLLTGCMNHGKLDLAE  385 (440)
Q Consensus       309 ~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~  385 (440)
                      ...|++++|...++++...... .....+..+...+...|++++|...+++. ...| +...+..+...+...|++++|.
T Consensus       110 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~  189 (234)
T TIGR02521       110 CQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQIDPQRPESLLELAELYYLRGQYKDAR  189 (234)
T ss_pred             HHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCChHHHHHHHHHHHHcCCHHHHH
Confidence            8888888888888888764221 23345666778888899999999988887 4444 3567778888899999999999


Q ss_pred             HHHHHHHhcCCCCCchHHHHHHHHHhccChHHHHHHHHHHHhc
Q 039362          386 IVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEARTTREAMETR  428 (440)
Q Consensus       386 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  428 (440)
                      ..++++.+..|.++..+..++..+...|+.++|..+.+.+...
T Consensus       190 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~  232 (234)
T TIGR02521       190 AYLERYQQTYNQTAESLWLGIRIARALGDVAAAQRYGAQLQKL  232 (234)
T ss_pred             HHHHHHHHhCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhh
Confidence            9999999888877778888889999999999999988877653

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.

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

Probab=99.58  E-value=7.2e-11  Score=103.22  Aligned_cols=403  Identities=11%  Similarity=0.066  Sum_probs=207.1

Q ss_pred             CChhhHHHHhhhcC---CCChHHHHHHHHHHHccCChhhHHHHHHHHHHcCCCCCcchHHHHHHHhhchhcHHHHHHHHH
Q 039362           11 GNIDYSCKVLSHLS---NPRIFYWNTVIRGYSKSKNPNKSISLFVKMLRAGVSPDHLTYPFLAKASGRLAKRELAVAVHA   87 (440)
Q Consensus        11 g~~~~A~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~   87 (440)
                      |++++|.+...++.   +.+..++.+-+-++++.++|+.|+.+.+.-...  ..+...+--=..++.+.+..++|+..++
T Consensus        26 ~e~e~a~k~~~Kil~~~pdd~~a~~cKvValIq~~ky~~ALk~ikk~~~~--~~~~~~~fEKAYc~Yrlnk~Dealk~~~  103 (652)
T KOG2376|consen   26 GEYEEAVKTANKILSIVPDDEDAIRCKVVALIQLDKYEDALKLIKKNGAL--LVINSFFFEKAYCEYRLNKLDEALKTLK  103 (652)
T ss_pred             hHHHHHHHHHHHHHhcCCCcHhhHhhhHhhhhhhhHHHHHHHHHHhcchh--hhcchhhHHHHHHHHHcccHHHHHHHHh
Confidence            67777776666554   344555666666677777777777544432210  1111111112233345666666666665


Q ss_pred             HHHHcCCCCcHHHHHHHHHHHHhcCCHHHHHHHhhCCCCCchhhHHHHHHHH-HhcCChHHHHHHHhhCCC---CchhhH
Q 039362           88 QIAKTGYESDLFISNSLIHMYGSCGDIVYAREVFDGMPTKMSVSWNSMLDGY-AKCGEMNMARQVFELMPE---RNVVSW  163 (440)
Q Consensus        88 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~-~~~~~~~~a~~~~~~~~~---~~~~~~  163 (440)
                      -..    +.+..+...-...+.+.|++++|..+|+.+.+.+...+...+.+- ...+.-..+. +.+..+.   .+...+
T Consensus       104 ~~~----~~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~dd~d~~~r~nl~a~~a~l~~~-~~q~v~~v~e~syel~  178 (652)
T KOG2376|consen  104 GLD----RLDDKLLELRAQVLYRLERYDEALDIYQHLAKNNSDDQDEERRANLLAVAAALQVQ-LLQSVPEVPEDSYELL  178 (652)
T ss_pred             ccc----ccchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHhhhHH-HHHhccCCCcchHHHH
Confidence            211    112234444455566666677777666666443332222221110 0000000110 1222221   112222


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhcC-------CCCCH------H-HHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCc
Q 039362          164 SALIDGYVKCGDYKEALVIFEEMRDVG-------SKANE------V-TLVSVLCACAHLGALDQGRMMLRYMIDKGLSLT  229 (440)
Q Consensus       164 ~~l~~~~~~~~~~~~a~~~~~~~~~~~-------~~~~~------~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  229 (440)
                      ......+...|++.+|+++++...+.+       -.-+.      . .-.-+.-++...|+..+|..++..+.+.+ ++|
T Consensus       179 yN~Ac~~i~~gky~qA~elL~kA~~~~~e~l~~~d~~eEeie~el~~IrvQlayVlQ~~Gqt~ea~~iy~~~i~~~-~~D  257 (652)
T KOG2376|consen  179 YNTACILIENGKYNQAIELLEKALRICREKLEDEDTNEEEIEEELNPIRVQLAYVLQLQGQTAEASSIYVDIIKRN-PAD  257 (652)
T ss_pred             HHHHHHHHhcccHHHHHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhc-CCC
Confidence            233445556667777777666652211       00000      0 11123334455667777777666666655 233


Q ss_pred             hhh----HHHHHHHH---------------------------------------------HhcCCHHHHHHHHhhhhhcC
Q 039362          230 LPL----QTSLIDMY---------------------------------------------AKCGAIKEALIVFHGVEKHQ  260 (440)
Q Consensus       230 ~~~----~~~l~~~~---------------------------------------------~~~g~~~~A~~~~~~~~~~~  260 (440)
                      ...    .|.|+.+-                                             .-.+.-+.+.++........
T Consensus       258 ~~~~Av~~NNLva~~~d~~~~d~~~l~~k~~~~~~l~~~~l~~Ls~~qk~~i~~N~~lL~l~tnk~~q~r~~~a~lp~~~  337 (652)
T KOG2376|consen  258 EPSLAVAVNNLVALSKDQNYFDGDLLKSKKSQVFKLAEFLLSKLSKKQKQAIYRNNALLALFTNKMDQVRELSASLPGMS  337 (652)
T ss_pred             chHHHHHhcchhhhccccccCchHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHhCCccC
Confidence            211    11111110                                             01122222222222222222


Q ss_pred             CchhhHHHHHHHH-H-hcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHH--------HHhhcCCC
Q 039362          261 SDVLIWNAMIGGL-A-MHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFK--------SLGKRGMV  330 (440)
Q Consensus       261 ~~~~~~~~l~~~~-~-~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~--------~~~~~~~~  330 (440)
                      |. ..+.+++... . +...+..+.+++....+....-........+......|+++.|.+++.        .+.+.+..
T Consensus       338 p~-~~~~~ll~~~t~~~~~~~~ka~e~L~~~~~~~p~~s~~v~L~~aQl~is~gn~~~A~~il~~~~~~~~ss~~~~~~~  416 (652)
T KOG2376|consen  338 PE-SLFPILLQEATKVREKKHKKAIELLLQFADGHPEKSKVVLLLRAQLKISQGNPEVALEILSLFLESWKSSILEAKHL  416 (652)
T ss_pred             ch-HHHHHHHHHHHHHHHHHHhhhHHHHHHHhccCCchhHHHHHHHHHHHHhcCCHHHHHHHHHHHhhhhhhhhhhhccC
Confidence            22 2233333322 2 223466777777776655311123455566667778999999999999        55554444


Q ss_pred             CCcchHHHHHHHHHhcCCHHHHHHHHhcC--------CCCcc-HhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCCch
Q 039362          331 PKSEHYACMVDALSRAGQVTEAYEFICQM--------PLEPT-ASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGR  401 (440)
Q Consensus       331 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~--------~~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~  401 (440)
                      |.  +...+...+.+.++.+.|..++.+.        .-.+. ..++..++..-.+.|+.++|..+++++.+.+|++..+
T Consensus       417 P~--~V~aiv~l~~~~~~~~~a~~vl~~Ai~~~~~~~t~s~~l~~~~~~aa~f~lr~G~~~ea~s~leel~k~n~~d~~~  494 (652)
T KOG2376|consen  417 PG--TVGAIVALYYKIKDNDSASAVLDSAIKWWRKQQTGSIALLSLMREAAEFKLRHGNEEEASSLLEELVKFNPNDTDL  494 (652)
T ss_pred             hh--HHHHHHHHHHhccCCccHHHHHHHHHHHHHHhcccchHHHhHHHHHhHHHHhcCchHHHHHHHHHHHHhCCchHHH
Confidence            43  4555667777777766666666654        11121 2334444455557899999999999999999999999


Q ss_pred             HHHHHHHHHhccChHHHHHHHHHH
Q 039362          402 YVGLSNVYAIFKRWDEARTTREAM  425 (440)
Q Consensus       402 ~~~l~~~~~~~g~~~~A~~~~~~~  425 (440)
                      ...++.+|++. +.+.|..+-+.+
T Consensus       495 l~~lV~a~~~~-d~eka~~l~k~L  517 (652)
T KOG2376|consen  495 LVQLVTAYARL-DPEKAESLSKKL  517 (652)
T ss_pred             HHHHHHHHHhc-CHHHHHHHhhcC
Confidence            99999999877 467777665444

>PRK12370 invasion protein regulator; Provisional

Probab=99.56  E-value=3.3e-12  Score=119.35  Aligned_cols=263  Identities=12%  Similarity=-0.004  Sum_probs=188.9

Q ss_pred             chhhHHHHHHHHHh-----cCCHHHHHHHHHHHHhcCCCCC-HHHHHHHHHHHH---------hcCChHHHHHHHHHHHH
Q 039362          159 NVVSWSALIDGYVK-----CGDYKEALVIFEEMRDVGSKAN-EVTLVSVLCACA---------HLGALDQGRMMLRYMID  223 (440)
Q Consensus       159 ~~~~~~~l~~~~~~-----~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~---------~~~~~~~a~~~~~~~~~  223 (440)
                      +...|...+.+-..     .+.+++|...|++..+.  .|+ ...+..+..++.         ..+++++|...++++.+
T Consensus       255 ~~da~~~~lrg~~~~~~~~~~~~~~A~~~~~~Al~l--dP~~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~Al~  332 (553)
T PRK12370        255 SIDSTMVYLRGKHELNQYTPYSLQQALKLLTQCVNM--SPNSIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKATE  332 (553)
T ss_pred             ChHHHHHHHHhHHHHHccCHHHHHHHHHHHHHHHhc--CCccHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHHh
Confidence            34455555544321     23467999999999876  443 445555554443         22457899999999998


Q ss_pred             cCCCCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCCc-hhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccH-hhH
Q 039362          224 KGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQSD-VLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDE-ITF  301 (440)
Q Consensus       224 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~-~~~  301 (440)
                      .+ +.+...+..+..++...|++++|...|+++.+..|+ ...+..+...+...|++++|+..+++..+..  |+. ..+
T Consensus       333 ld-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l~--P~~~~~~  409 (553)
T PRK12370        333 LD-HNNPQALGLLGLINTIHSEYIVGSLLFKQANLLSPISADIKYYYGWNLFMAGQLEEALQTINECLKLD--PTRAAAG  409 (553)
T ss_pred             cC-CCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CCChhhH
Confidence            87 778888889999999999999999999999988775 5678888889999999999999999998864  442 233


Q ss_pred             HHHHHHHHcCCChHHHHHHHHHHhhcCCCC-CcchHHHHHHHHHhcCCHHHHHHHHhcC-CCCccHh-HHHHHHHHHHhc
Q 039362          302 LGLLSACAHGGLVMEAWYFFKSLGKRGMVP-KSEHYACMVDALSRAGQVTEAYEFICQM-PLEPTAS-MLGSLLTGCMNH  378 (440)
Q Consensus       302 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p~~~-~~~~l~~~~~~~  378 (440)
                      ..++..+...|++++|...++++.+.. .| +...+..+..++...|++++|...++++ ...|+.. ..+.+...+...
T Consensus       410 ~~~~~~~~~~g~~eeA~~~~~~~l~~~-~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~~~~~~~~~~~l~~~~~~~  488 (553)
T PRK12370        410 ITKLWITYYHTGIDDAIRLGDELRSQH-LQDNPILLSMQVMFLSLKGKHELARKLTKEISTQEITGLIAVNLLYAEYCQN  488 (553)
T ss_pred             HHHHHHHHhccCHHHHHHHHHHHHHhc-cccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhccchhHHHHHHHHHHHhcc
Confidence            344445666899999999999987753 24 3445677888899999999999999987 4455543 345555566777


Q ss_pred             CChhHHHHHHHHHHhcCCCCCchHHHHHHHHHhccChHHHHHHHHHHHhcCC
Q 039362          379 GKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEARTTREAMETRGV  430 (440)
Q Consensus       379 g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  430 (440)
                      |  ++|...++++.+.....+.........|.-.|+.+.+... +++.+.+-
T Consensus       489 g--~~a~~~l~~ll~~~~~~~~~~~~~~~~~~~~g~~~~~~~~-~~~~~~~~  537 (553)
T PRK12370        489 S--ERALPTIREFLESEQRIDNNPGLLPLVLVAHGEAIAEKMW-NKFKNEDN  537 (553)
T ss_pred             H--HHHHHHHHHHHHHhhHhhcCchHHHHHHHHHhhhHHHHHH-HHhhccch
Confidence            7  4788878877765422222223366666677877777666 77776643

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

Probab=99.55  E-value=3.4e-11  Score=104.70  Aligned_cols=400  Identities=12%  Similarity=0.034  Sum_probs=279.8

Q ss_pred             cccccccCChhhHHHHhhh--cCCCChHHHHHHHHHHHccCChhhHHHHHHH----HHHc---------CCCCCcch---
Q 039362            4 FSALSYLGNIDYSCKVLSH--LSNPRIFYWNTVIRGYSKSKNPNKSISLFVK----MLRA---------GVSPDHLT---   65 (440)
Q Consensus         4 ~y~~~~~g~~~~A~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~----~~~~---------~~~~~~~~---   65 (440)
                      .|...  |+++.|..+...  +.+.|..........+.+..+++.|..++..    +...         -+.+|...   
T Consensus        58 ~l~~~--~~y~ra~~lit~~~le~~d~~cryL~~~~l~~lk~~~~al~vl~~~~~~~~~f~yy~~~~~~~l~~n~~~~~~  135 (611)
T KOG1173|consen   58 VLYLG--RQYERAAHLITTYKLEKRDIACRYLAAKCLVKLKEWDQALLVLGRGHVETNPFSYYEKDAANTLELNSAGEDL  135 (611)
T ss_pred             HHHhh--hHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHhcccchhhcchhhcchhhhceeccCcccccc
Confidence            34444  677777776653  4578888888888999999999999999882    2110         01112111   


Q ss_pred             -HHHHH-------HHhhchhcHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhc------------------CCHHHHHH
Q 039362           66 -YPFLA-------KASGRLAKRELAVAVHAQIAKTGYESDLFISNSLIHMYGSC------------------GDIVYARE  119 (440)
Q Consensus        66 -~~~l~-------~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~------------------g~~~~a~~  119 (440)
                       -+.-.       ..|....+.++|...|.+....++. ....+-.++....-.                  .+.+....
T Consensus       136 ~~~~essic~lRgk~y~al~n~~~ar~~Y~~Al~~D~~-c~Ea~~~lvs~~mlt~~Ee~~ll~~l~~a~~~~ed~e~l~~  214 (611)
T KOG1173|consen  136 MINLESSICYLRGKVYVALDNREEARDKYKEALLADAK-CFEAFEKLVSAHMLTAQEEFELLESLDLAMLTKEDVERLEI  214 (611)
T ss_pred             cccchhceeeeeeehhhhhccHHHHHHHHHHHHhcchh-hHHHHHHHHHHHhcchhHHHHHHhcccHHhhhhhHHHHHHH
Confidence             11111       2244455677788777777655433 222222222221110                  11122222


Q ss_pred             HhhCC----C----------------CCchhhHHHHHHHHHhcCChHHHHHHHhhCCCC---chhhHHHHHHHHHhcCCH
Q 039362          120 VFDGM----P----------------TKMSVSWNSMLDGYAKCGEMNMARQVFELMPER---NVVSWSALIDGYVKCGDY  176 (440)
Q Consensus       120 ~~~~~----~----------------~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~  176 (440)
                      +|+-.    .                ..++........-+...+++.+..++++.+.+.   ....+..-|.++...|+.
T Consensus       215 lyel~~~k~~n~~~~~r~~~~sl~~l~~~~dll~~~ad~~y~~c~f~~c~kit~~lle~dpfh~~~~~~~ia~l~el~~~  294 (611)
T KOG1173|consen  215 LYELKLCKNRNEESLTRNEDESLIGLAENLDLLAEKADRLYYGCRFKECLKITEELLEKDPFHLPCLPLHIACLYELGKS  294 (611)
T ss_pred             HHHhhhhhhccccccccCchhhhhhhhhcHHHHHHHHHHHHHcChHHHHHHHhHHHHhhCCCCcchHHHHHHHHHHhccc
Confidence            23211    0                012333444455677889999999999988763   344566667788899998


Q ss_pred             HHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHhhh
Q 039362          177 KEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGV  256 (440)
Q Consensus       177 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  256 (440)
                      .+-..+=.++.+.- |....+|..+.--|...|+..+|.+.|.+....+ +.-...|..+...|.-.|..++|+..|..+
T Consensus       295 n~Lf~lsh~LV~~y-P~~a~sW~aVg~YYl~i~k~seARry~SKat~lD-~~fgpaWl~fghsfa~e~EhdQAmaaY~tA  372 (611)
T KOG1173|consen  295 NKLFLLSHKLVDLY-PSKALSWFAVGCYYLMIGKYSEARRYFSKATTLD-PTFGPAWLAFGHSFAGEGEHDQAMAAYFTA  372 (611)
T ss_pred             chHHHHHHHHHHhC-CCCCcchhhHHHHHHHhcCcHHHHHHHHHHhhcC-ccccHHHHHHhHHhhhcchHHHHHHHHHHH
Confidence            88888888888763 5567788888888888999999999999987765 455678899999999999999999999988


Q ss_pred             hhcCCc-hhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHhhc--CCCC--
Q 039362          257 EKHQSD-VLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKR--GMVP--  331 (440)
Q Consensus       257 ~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~--  331 (440)
                      .+.-|. ...+--+.--|.+.++...|.+.|.+..... +.|+..++-+.-.....+.+.+|..+|+..+..  .+.+  
T Consensus       373 arl~~G~hlP~LYlgmey~~t~n~kLAe~Ff~~A~ai~-P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~  451 (611)
T KOG1173|consen  373 ARLMPGCHLPSLYLGMEYMRTNNLKLAEKFFKQALAIA-PSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEK  451 (611)
T ss_pred             HHhccCCcchHHHHHHHHHHhccHHHHHHHHHHHHhcC-CCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccc
Confidence            766442 2233445557888999999999999987642 555667776666666779999999999988733  1111  


Q ss_pred             --CcchHHHHHHHHHhcCCHHHHHHHHhcC-C-CCccHhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCCchHHHHHH
Q 039362          332 --KSEHYACMVDALSRAGQVTEAYEFICQM-P-LEPTASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSN  407 (440)
Q Consensus       332 --~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~-~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~  407 (440)
                        -..+++.|..+|.+.+++++|+..+++. . .+.+..++..++-.+...|+++.|++.|.+++.+.|++..+-..|..
T Consensus       452 ~~w~p~~~NLGH~~Rkl~~~~eAI~~~q~aL~l~~k~~~~~asig~iy~llgnld~Aid~fhKaL~l~p~n~~~~~lL~~  531 (611)
T KOG1173|consen  452 IFWEPTLNNLGHAYRKLNKYEEAIDYYQKALLLSPKDASTHASIGYIYHLLGNLDKAIDHFHKALALKPDNIFISELLKL  531 (611)
T ss_pred             cchhHHHHhHHHHHHHHhhHHHHHHHHHHHHHcCCCchhHHHHHHHHHHHhcChHHHHHHHHHHHhcCCccHHHHHHHHH
Confidence              3345888999999999999999999998 3 34478899999999999999999999999999999999755555544


Q ss_pred             HH
Q 039362          408 VY  409 (440)
Q Consensus       408 ~~  409 (440)
                      +.
T Consensus       532 ai  533 (611)
T KOG1173|consen  532 AI  533 (611)
T ss_pred             HH
Confidence            43

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

Probab=99.54  E-value=2.4e-12  Score=117.26  Aligned_cols=271  Identities=13%  Similarity=0.107  Sum_probs=138.3

Q ss_pred             HHHHHHHHcCCCCCcchHHHHHHHhhchhcHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhcCCHHHHHHHhhCCCCCc
Q 039362           49 SLFVKMLRAGVSPDHLTYPFLAKASGRLAKRELAVAVHAQIAKTGYESDLFISNSLIHMYGSCGDIVYAREVFDGMPTKM  128 (440)
Q Consensus        49 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  128 (440)
                      ..+..+...|+.|+..||..+|.-|+..|+.+.|- +|.-|.-...+.+...++.++......++.+.+.       +|.
T Consensus        11 nfla~~e~~gi~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpk-------ep~   82 (1088)
T KOG4318|consen   11 NFLALHEISGILPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPK-------EPL   82 (1088)
T ss_pred             hHHHHHHHhcCCCchhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCC-------CCc
Confidence            34556677778888888888888888888888777 7777777766777777888887777777766654       566


Q ss_pred             hhhHHHHHHHHHhcCChHHHHHHHhhCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHH-hcCCCCCHHHHHHHHHHHHh
Q 039362          129 SVSWNSMLDGYAKCGEMNMARQVFELMPERNVVSWSALIDGYVKCGDYKEALVIFEEMR-DVGSKANEVTLVSVLCACAH  207 (440)
Q Consensus       129 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~-~~~~~~~~~~~~~l~~~~~~  207 (440)
                      ..+|..|+.+|...||+..-. ..++       ....+...+...|--.....++..+. ..+.-||..+.   +.....
T Consensus        83 aDtyt~Ll~ayr~hGDli~fe-~veq-------dLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~n~---illlv~  151 (1088)
T KOG4318|consen   83 ADTYTNLLKAYRIHGDLILFE-VVEQ-------DLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAENA---ILLLVL  151 (1088)
T ss_pred             hhHHHHHHHHHHhccchHHHH-HHHH-------HHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHHHH---HHHHHH
Confidence            677888888887777765411 1111       11112223333333333333332221 11122222221   111222


Q ss_pred             cCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHh-cCCHHHHHHHHhhhhhcCCchhhHHHHHHHHHhcCChHHHHHHH
Q 039362          208 LGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAK-CGAIKEALIVFHGVEKHQSDVLIWNAMIGGLAMHGFVKESLELF  286 (440)
Q Consensus       208 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  286 (440)
                      .|-++.+.+++..+...... .+...  .+.-... ...+++-..+.+...+ .|++.+|.+.+..-...|+.+.|..++
T Consensus       152 eglwaqllkll~~~Pvsa~~-~p~~v--fLrqnv~~ntpvekLl~~cksl~e-~~~s~~l~a~l~~alaag~~d~Ak~ll  227 (1088)
T KOG4318|consen  152 EGLWAQLLKLLAKVPVSAWN-APFQV--FLRQNVVDNTPVEKLLNMCKSLVE-APTSETLHAVLKRALAAGDVDGAKNLL  227 (1088)
T ss_pred             HHHHHHHHHHHhhCCccccc-chHHH--HHHHhccCCchHHHHHHHHHHhhc-CCChHHHHHHHHHHHhcCchhhHHHHH
Confidence            23333333333322111100 00000  1111111 1122333333333333 455666666666656666666666666


Q ss_pred             HHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHh
Q 039362          287 TEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSR  345 (440)
Q Consensus       287 ~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  345 (440)
                      .+|.+.|++.+...|..|+-+   .++..-++.+++-|.+.|+.|+..|+...+-.+..
T Consensus       228 ~emke~gfpir~HyFwpLl~g---~~~~q~~e~vlrgmqe~gv~p~seT~adyvip~l~  283 (1088)
T KOG4318|consen  228 YEMKEKGFPIRAHYFWPLLLG---INAAQVFEFVLRGMQEKGVQPGSETQADYVIPQLS  283 (1088)
T ss_pred             HHHHHcCCCcccccchhhhhc---CccchHHHHHHHHHHHhcCCCCcchhHHHHHhhhc
Confidence            666666655555555544433   45555555555566555666666665544444443

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=99.54  E-value=1.9e-10  Score=103.80  Aligned_cols=371  Identities=15%  Similarity=0.047  Sum_probs=250.0

Q ss_pred             cCCCCCcchHHHHHHHhhchhcHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhcCCHHHHHHHhhCCCCCc--h--h-h
Q 039362           57 AGVSPDHLTYPFLAKASGRLAKRELAVAVHAQIAKTGYESDLFISNSLIHMYGSCGDIVYAREVFDGMPTKM--S--V-S  131 (440)
Q Consensus        57 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~--~--~-~  131 (440)
                      ..+.-|...|..+.-++...|+++.+.+.|++.....+. ....|+.+...|...|.-..|..+++.-....  +  . .
T Consensus       317 ~~~qnd~ai~d~Lt~al~~~g~f~~lae~fE~~~~~~~~-~~e~w~~~als~saag~~s~Av~ll~~~~~~~~~ps~~s~  395 (799)
T KOG4162|consen  317 KKFQNDAAIFDHLTFALSRCGQFEVLAEQFEQALPFSFG-EHERWYQLALSYSAAGSDSKAVNLLRESLKKSEQPSDISV  395 (799)
T ss_pred             hhhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhhhh-hHHHHHHHHHHHHHhccchHHHHHHHhhcccccCCCcchH
Confidence            345567788888888888999999999999988765433 56778888888999999889998887765322  2  2 2


Q ss_pred             HHHHHHHH-HhcCChHHHHHHHhhCCC--------CchhhHHHHHHHHHhc-----------CCHHHHHHHHHHHHhcCC
Q 039362          132 WNSMLDGY-AKCGEMNMARQVFELMPE--------RNVVSWSALIDGYVKC-----------GDYKEALVIFEEMRDVGS  191 (440)
Q Consensus       132 ~~~l~~~~-~~~~~~~~a~~~~~~~~~--------~~~~~~~~l~~~~~~~-----------~~~~~a~~~~~~~~~~~~  191 (440)
                      +-..-..| .+.+..++++..-.++.+        -.+..|..+.-+|...           ....++++.+++..+.+ 
T Consensus       396 ~Lmasklc~e~l~~~eegldYA~kai~~~~~~~~~l~~~~~l~lGi~y~~~A~~a~~~seR~~~h~kslqale~av~~d-  474 (799)
T KOG4162|consen  396 LLMASKLCIERLKLVEEGLDYAQKAISLLGGQRSHLKPRGYLFLGIAYGFQARQANLKSERDALHKKSLQALEEAVQFD-  474 (799)
T ss_pred             HHHHHHHHHhchhhhhhHHHHHHHHHHHhhhhhhhhhhhHHHHHHHHHHhHhhcCCChHHHHHHHHHHHHHHHHHHhcC-
Confidence            22222222 344566666655555432        1233444444444321           13456777888877665 


Q ss_pred             CCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCCc-hhhHHHHH
Q 039362          192 KANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQSD-VLIWNAMI  270 (440)
Q Consensus       192 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~l~  270 (440)
                      +.|......+.--|+-.++++.|.+..++..+.+-..+...|..|.-++.-.+++.+|+.+.+......|+ ......-+
T Consensus       475 ~~dp~~if~lalq~A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALvlSa~kr~~~Al~vvd~al~E~~~N~~l~~~~~  554 (799)
T KOG4162|consen  475 PTDPLVIFYLALQYAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDVVDAALEEFGDNHVLMDGKI  554 (799)
T ss_pred             CCCchHHHHHHHHHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHhhhhhhhchhhh
Confidence            33333334444556777889999999999888866788888888888888889999998888876644332 11111111


Q ss_pred             HHHHhcCChHHHHHH-------------------------------------------HHHH--------HHcC------
Q 039362          271 GGLAMHGFVKESLEL-------------------------------------------FTEM--------QIVG------  293 (440)
Q Consensus       271 ~~~~~~~~~~~a~~~-------------------------------------------~~~m--------~~~~------  293 (440)
                      ..-...++.++++..                                           ...+        ...|      
T Consensus       555 ~i~~~~~~~e~~l~t~~~~L~~we~~~~~q~~~~~g~~~~lk~~l~la~~q~~~a~s~sr~ls~l~a~~~~~~~se~~Lp  634 (799)
T KOG4162|consen  555 HIELTFNDREEALDTCIHKLALWEAEYGVQQTLDEGKLLRLKAGLHLALSQPTDAISTSRYLSSLVASQLKSAGSELKLP  634 (799)
T ss_pred             hhhhhcccHHHHHHHHHHHHHHHHhhhhHhhhhhhhhhhhhhcccccCcccccccchhhHHHHHHHHhhhhhcccccccC
Confidence            111111222222111                                           1111        0001      


Q ss_pred             ---CCccH--------hhHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcC-CC
Q 039362          294 ---ITPDE--------ITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQM-PL  361 (440)
Q Consensus       294 ---~~p~~--------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~  361 (440)
                         +.|..        ..|......+.+.++.++|...+.++.+.. ......|......+...|..++|.+.|... .+
T Consensus       635 ~s~~~~~~~~~~~~~~~lwllaa~~~~~~~~~~~a~~CL~Ea~~~~-~l~~~~~~~~G~~~~~~~~~~EA~~af~~Al~l  713 (799)
T KOG4162|consen  635 SSTVLPGPDSLWYLLQKLWLLAADLFLLSGNDDEARSCLLEASKID-PLSASVYYLRGLLLEVKGQLEEAKEAFLVALAL  713 (799)
T ss_pred             cccccCCCCchHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHhcc-hhhHHHHHHhhHHHHHHHhhHHHHHHHHHHHhc
Confidence               01111        123344556667788888887777776642 335666777778888999999999999887 67


Q ss_pred             CccH-hHHHHHHHHHHhcCChhHHHH--HHHHHHhcCCCCCchHHHHHHHHHhccChHHHHHHHHHHHhcCC
Q 039362          362 EPTA-SMLGSLLTGCMNHGKLDLAEI--VGKKLVELQPDHDGRYVGLSNVYAIFKRWDEARTTREAMETRGV  430 (440)
Q Consensus       362 ~p~~-~~~~~l~~~~~~~g~~~~a~~--~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  430 (440)
                      .|+. .+...+...+.+.|+..-|..  ++..+.+.+|.++.+|..++.++.+.|+.++|.+.|+...+...
T Consensus       714 dP~hv~s~~Ala~~lle~G~~~la~~~~~L~dalr~dp~n~eaW~~LG~v~k~~Gd~~~Aaecf~aa~qLe~  785 (799)
T KOG4162|consen  714 DPDHVPSMTALAELLLELGSPRLAEKRSLLSDALRLDPLNHEAWYYLGEVFKKLGDSKQAAECFQAALQLEE  785 (799)
T ss_pred             CCCCcHHHHHHHHHHHHhCCcchHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHccchHHHHHHHHHHHhhcc
Confidence            7755 778899999999999888887  99999999999999999999999999999999999999887643

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.52  E-value=5.9e-11  Score=106.01  Aligned_cols=233  Identities=18%  Similarity=0.165  Sum_probs=162.4

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHHHc-----C-CCCchh-hHHHHHHHHHhcCCHHHHHHHHhhhhhc-----C--
Q 039362          195 EVTLVSVLCACAHLGALDQGRMMLRYMIDK-----G-LSLTLP-LQTSLIDMYAKCGAIKEALIVFHGVEKH-----Q--  260 (440)
Q Consensus       195 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~-~~~~~~-~~~~l~~~~~~~g~~~~A~~~~~~~~~~-----~--  260 (440)
                      ..+...+...|...|+++.|...++..++.     | ..|... ..+.+...|...+++++|..+|+++...     +  
T Consensus       199 ~~~~~~La~~y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i~e~~~G~~  278 (508)
T KOG1840|consen  199 LRTLRNLAEMYAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEEALTIREEVFGED  278 (508)
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHhcCCC
Confidence            345555667777777777777777766544     1 122222 2344677788888888888888877543     2  


Q ss_pred             -Cc-hhhHHHHHHHHHhcCChHHHHHHHHHHHHc-----CC-CccH-hhHHHHHHHHHcCCChHHHHHHHHHHhhc---C
Q 039362          261 -SD-VLIWNAMIGGLAMHGFVKESLELFTEMQIV-----GI-TPDE-ITFLGLLSACAHGGLVMEAWYFFKSLGKR---G  328 (440)
Q Consensus       261 -~~-~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~-----~~-~p~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~  328 (440)
                       |. ..+++.|..+|.+.|++++|..+++...+-     |. .|.. .-++.+...|...+++++|..++....+.   -
T Consensus       279 h~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~i~~~~  358 (508)
T KOG1840|consen  279 HPAVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQKALKIYLDA  358 (508)
T ss_pred             CHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhh
Confidence             22 346777777888888888887777765321     21 2222 23556667778888899998888876654   1


Q ss_pred             CCCC----cchHHHHHHHHHhcCCHHHHHHHHhcC---------CCCcc-HhHHHHHHHHHHhcCChhHHHHHHHHHHh-
Q 039362          329 MVPK----SEHYACMVDALSRAGQVTEAYEFICQM---------PLEPT-ASMLGSLLTGCMNHGKLDLAEIVGKKLVE-  393 (440)
Q Consensus       329 ~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~---------~~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~-  393 (440)
                      +.++    ..+++.|...|...|++++|.++++++         +..+. ...++.+...|.+.+++.+|..+|.+... 
T Consensus       359 ~g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~~~~~~i  438 (508)
T KOG1840|consen  359 PGEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQLFEEAKDI  438 (508)
T ss_pred             ccccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHHHHHHHHHHH
Confidence            2222    346888999999999999999998876         12232 35678888889999999999888887765 


Q ss_pred             ---cCCCCCc---hHHHHHHHHHhccChHHHHHHHHHHHh
Q 039362          394 ---LQPDHDG---RYVGLSNVYAIFKRWDEARTTREAMET  427 (440)
Q Consensus       394 ---~~~~~~~---~~~~l~~~~~~~g~~~~A~~~~~~~~~  427 (440)
                         .+|..+.   +|..|+.+|.+.|++++|.++.+.+..
T Consensus       439 ~~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~~  478 (508)
T KOG1840|consen  439 MKLCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVLN  478 (508)
T ss_pred             HHHhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHHH
Confidence               3455544   688899999999999999999888874

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

Probab=99.51  E-value=2.4e-10  Score=103.41  Aligned_cols=401  Identities=12%  Similarity=0.067  Sum_probs=210.5

Q ss_pred             CChhhHHHHhhhcCC--CC-hHHHHHHHHHHHccCChhhHHHHHHHHHHcCCCCCcchHHHHHHHhh-c-----hhcHHH
Q 039362           11 GNIDYSCKVLSHLSN--PR-IFYWNTVIRGYSKSKNPNKSISLFVKMLRAGVSPDHLTYPFLAKASG-R-----LAKREL   81 (440)
Q Consensus        11 g~~~~A~~~~~~~~~--~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~-~-----~~~~~~   81 (440)
                      |++++|++.++....  .| ..........+.+.|+.++|..+|..+++.+  |+...|...+..+. .     ..+.+.
T Consensus        18 g~~~~AL~~L~~~~~~I~Dk~~~~E~rA~ll~kLg~~~eA~~~y~~Li~rN--Pdn~~Yy~~L~~~~g~~~~~~~~~~~~   95 (517)
T PF12569_consen   18 GDYEEALEHLEKNEKQILDKLAVLEKRAELLLKLGRKEEAEKIYRELIDRN--PDNYDYYRGLEEALGLQLQLSDEDVEK   95 (517)
T ss_pred             CCHHHHHHHHHhhhhhCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC--CCcHHHHHHHHHHHhhhcccccccHHH
Confidence            777777777766442  23 4455666677777777777777777777764  55554444433332 1     124566


Q ss_pred             HHHHHHHHHHcCCCCcHHHHHHHHHHHHhcCCHH-HHHHHhhCCCCCch-hhHHHHHHHHHhcCChHHHHHHHhhCCC--
Q 039362           82 AVAVHAQIAKTGYESDLFISNSLIHMYGSCGDIV-YAREVFDGMPTKMS-VSWNSMLDGYAKCGEMNMARQVFELMPE--  157 (440)
Q Consensus        82 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~-~a~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~--  157 (440)
                      ..++++.+...-+  .......+.-.+.....+. .+...+..+...++ ..|+.+-..|......+-..+++.....  
T Consensus        96 ~~~~y~~l~~~yp--~s~~~~rl~L~~~~g~~F~~~~~~yl~~~l~KgvPslF~~lk~Ly~d~~K~~~i~~l~~~~~~~l  173 (517)
T PF12569_consen   96 LLELYDELAEKYP--RSDAPRRLPLDFLEGDEFKERLDEYLRPQLRKGVPSLFSNLKPLYKDPEKAAIIESLVEEYVNSL  173 (517)
T ss_pred             HHHHHHHHHHhCc--cccchhHhhcccCCHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHcChhHHHHHHHHHHHHHHhh
Confidence            6677777665532  2222222222222212222 23333333333332 3455555555544444444444433210  


Q ss_pred             ----------------Cch--hhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCC-HHHHHHHHHHHHhcCChHHHHHHH
Q 039362          158 ----------------RNV--VSWSALIDGYVKCGDYKEALVIFEEMRDVGSKAN-EVTLVSVLCACAHLGALDQGRMML  218 (440)
Q Consensus       158 ----------------~~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~  218 (440)
                                      |+.  .++..+...|...|++++|++++++.++.  .|+ ...|..-...+-..|++.+|...+
T Consensus       174 ~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~h--tPt~~ely~~KarilKh~G~~~~Aa~~~  251 (517)
T PF12569_consen  174 ESNGSFSNGDDEEKEPPSTLLWTLYFLAQHYDYLGDYEKALEYIDKAIEH--TPTLVELYMTKARILKHAGDLKEAAEAM  251 (517)
T ss_pred             cccCCCCCccccccCCchHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhc--CCCcHHHHHHHHHHHHHCCCHHHHHHHH
Confidence                            112  13355566677777777777777777766  343 456666667777777777777777


Q ss_pred             HHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhcC--C--chh----hH--HHHHHHHHhcCChHHHHHHHHH
Q 039362          219 RYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQ--S--DVL----IW--NAMIGGLAMHGFVKESLELFTE  288 (440)
Q Consensus       219 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~--~--~~~----~~--~~l~~~~~~~~~~~~a~~~~~~  288 (440)
                      +...+.+ ..|..+-+..+..+.++|++++|..++....+..  |  |..    .|  .....+|.+.|++..|+..|..
T Consensus       252 ~~Ar~LD-~~DRyiNsK~aKy~LRa~~~e~A~~~~~~Ftr~~~~~~~~L~~mQc~Wf~~e~a~a~~r~~~~~~ALk~~~~  330 (517)
T PF12569_consen  252 DEARELD-LADRYINSKCAKYLLRAGRIEEAEKTASLFTREDVDPLSNLNDMQCMWFETECAEAYLRQGDYGLALKRFHA  330 (517)
T ss_pred             HHHHhCC-hhhHHHHHHHHHHHHHCCCHHHHHHHHHhhcCCCCCcccCHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHH
Confidence            7777665 5566666666777777777777777776665332  1  111    11  3345567777777777777766


Q ss_pred             HHHc--CCCccHhhHHHHHHHHHcCCChHHHHHHHHHHhhcCCCC-CcchHHHHHHHHHhcCCH----------------
Q 039362          289 MQIV--GITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVP-KSEHYACMVDALSRAGQV----------------  349 (440)
Q Consensus       289 m~~~--~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~----------------  349 (440)
                      ..+.  .+.-|..-|..   -|.+.+-+..=.++++---...-.| =......+++.|....+-                
T Consensus       331 v~k~f~~~~~DQfDFH~---Yc~RK~t~r~Y~~~L~~ed~l~~~~~y~raa~~ai~iYl~l~d~~~~~~~~~~~~~~~~~  407 (517)
T PF12569_consen  331 VLKHFDDFEEDQFDFHS---YCLRKMTLRAYVDMLRWEDKLRSHPFYRRAAKGAIRIYLELHDKPEAKQGEEQEADNENM  407 (517)
T ss_pred             HHHHHHHHhcccccHHH---HHHhhccHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHhcCcccccccccccccccC
Confidence            5542  11222222221   1444444433333332111110001 011112223333221110                


Q ss_pred             --HHHHHHHhcC----------------------------------CCCccHhHHHHHHHHHHhcC-ChhHHHHHHHHHH
Q 039362          350 --TEAYEFICQM----------------------------------PLEPTASMLGSLLTGCMNHG-KLDLAEIVGKKLV  392 (440)
Q Consensus       350 --~~a~~~~~~~----------------------------------~~~p~~~~~~~l~~~~~~~g-~~~~a~~~~~~~~  392 (440)
                        .+..+.-++.                                  ....|..   .+..-+.+.. =.++|.++++.+.
T Consensus       408 ~~~e~Kk~~kK~kK~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~D---p~GekL~~t~dPLe~A~kfl~pL~  484 (517)
T PF12569_consen  408 SAAERKKAKKKAKKAAKKAKKEEAEKAAKKEPKKQQNKSKKKEKVEPKKKDDD---PLGEKLLKTEDPLEEAMKFLKPLL  484 (517)
T ss_pred             ChHHHHHHHHHHHHHHHHHhHHHHHHHHhhhhhhhhccccccccccCCcCCCC---ccHHHHhcCCcHHHHHHHHHHHHH
Confidence              0000000000                                  0011111   1122223333 3578899999999


Q ss_pred             hcCCCCCchHHHHHHHHHhccChHHHHHHHHH
Q 039362          393 ELQPDHDGRYVGLSNVYAIFKRWDEARTTREA  424 (440)
Q Consensus       393 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  424 (440)
                      +..|++..+|..-..+|.+.|++--|++.+.+
T Consensus       485 ~~a~~~~et~~laFeVy~Rk~K~LLaLqaL~k  516 (517)
T PF12569_consen  485 ELAPDNIETHLLAFEVYLRKGKYLLALQALKK  516 (517)
T ss_pred             HhCccchhhHHHHhHHHHhcCcHHHHHHHHHh
Confidence            99999999999999999999999888887654

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 [], [].

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

Probab=99.50  E-value=3.3e-12  Score=103.43  Aligned_cols=233  Identities=11%  Similarity=0.065  Sum_probs=200.5

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhc
Q 039362          164 SALIDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKC  243 (440)
Q Consensus       164 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  243 (440)
                      +.+..+|.+.|.+.+|.+.++...+.  .|-..||..+-.+|.+..++..|..++.+-++.- |.+..........+...
T Consensus       227 ~Q~gkCylrLgm~r~AekqlqssL~q--~~~~dTfllLskvY~ridQP~~AL~~~~~gld~f-P~~VT~l~g~ARi~eam  303 (478)
T KOG1129|consen  227 QQMGKCYLRLGMPRRAEKQLQSSLTQ--FPHPDTFLLLSKVYQRIDQPERALLVIGEGLDSF-PFDVTYLLGQARIHEAM  303 (478)
T ss_pred             HHHHHHHHHhcChhhhHHHHHHHhhc--CCchhHHHHHHHHHHHhccHHHHHHHHhhhhhcC-CchhhhhhhhHHHHHHH
Confidence            56889999999999999999998876  6777889999999999999999999999988764 66666667788899999


Q ss_pred             CCHHHHHHHHhhhhhcCC-chhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHH
Q 039362          244 GAIKEALIVFHGVEKHQS-DVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFK  322 (440)
Q Consensus       244 g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~  322 (440)
                      ++.++|.++|+.+.+..| ++.....+...|.-.++++-|+..++++.+.|+ .++..|..+.-+|...++++-++.-|.
T Consensus       304 ~~~~~a~~lYk~vlk~~~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~-~speLf~NigLCC~yaqQ~D~~L~sf~  382 (478)
T KOG1129|consen  304 EQQEDALQLYKLVLKLHPINVEAIACIAVGYFYDNNPEMALRYYRRILQMGA-QSPELFCNIGLCCLYAQQIDLVLPSFQ  382 (478)
T ss_pred             HhHHHHHHHHHHHHhcCCccceeeeeeeeccccCCChHHHHHHHHHHHHhcC-CChHHHhhHHHHHHhhcchhhhHHHHH
Confidence            999999999999988766 677777788889999999999999999999994 567788888889999999999999999


Q ss_pred             HHhhcCCCCC--cchHHHHHHHHHhcCCHHHHHHHHhcC-CCCc-cHhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCC
Q 039362          323 SLGKRGMVPK--SEHYACMVDALSRAGQVTEAYEFICQM-PLEP-TASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDH  398 (440)
Q Consensus       323 ~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~  398 (440)
                      +....--.|+  ..+|..+.......|++.-|.+.|+-. ...| +...++.|...-.+.|+++.|..++..+....|.-
T Consensus       383 RAlstat~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d~~h~ealnNLavL~~r~G~i~~Arsll~~A~s~~P~m  462 (478)
T KOG1129|consen  383 RALSTATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSDAQHGEALNNLAVLAARSGDILGARSLLNAAKSVMPDM  462 (478)
T ss_pred             HHHhhccCcchhhhhhhccceeEEeccchHHHHHHHHHHhccCcchHHHHHhHHHHHhhcCchHHHHHHHHHhhhhCccc
Confidence            9887633343  456888888888999999999999987 3344 45789999998999999999999999999988875


Q ss_pred             Cc
Q 039362          399 DG  400 (440)
Q Consensus       399 ~~  400 (440)
                      ..
T Consensus       463 ~E  464 (478)
T KOG1129|consen  463 AE  464 (478)
T ss_pred             cc
Confidence            43

>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]

Probab=99.49  E-value=1.6e-09  Score=96.04  Aligned_cols=393  Identities=13%  Similarity=0.068  Sum_probs=253.5

Q ss_pred             HHHHHHHHHHccCChhhHHHHHHHHHHcCCCCCcchHHHHHHHhhchhcHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHH
Q 039362           30 YWNTVIRGYSKSKNPNKSISLFVKMLRAGVSPDHLTYPFLAKASGRLAKRELAVAVHAQIAKTGYESDLFISNSLIHMYG  109 (440)
Q Consensus        30 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  109 (440)
                      +.....-.+...|+-++|.+..+...+.. ..+...|+.+.-.+....++++|++.|..+...+.. |...+.-+.-.-+
T Consensus        43 slAmkGL~L~~lg~~~ea~~~vr~glr~d-~~S~vCwHv~gl~~R~dK~Y~eaiKcy~nAl~~~~d-N~qilrDlslLQ~  120 (700)
T KOG1156|consen   43 SLAMKGLTLNCLGKKEEAYELVRLGLRND-LKSHVCWHVLGLLQRSDKKYDEAIKCYRNALKIEKD-NLQILRDLSLLQI  120 (700)
T ss_pred             hHHhccchhhcccchHHHHHHHHHHhccC-cccchhHHHHHHHHhhhhhHHHHHHHHHHHHhcCCC-cHHHHHHHHHHHH
Confidence            34334444667788888888888777643 345667888888888888999999999998887643 7778888877778


Q ss_pred             hcCCHHHHHHHhhCCCC---CchhhHHHHHHHHHhcCChHHHHHHHhhCCC-----CchhhHHHH------HHHHHhcCC
Q 039362          110 SCGDIVYAREVFDGMPT---KMSVSWNSMLDGYAKCGEMNMARQVFELMPE-----RNVVSWSAL------IDGYVKCGD  175 (440)
Q Consensus       110 ~~g~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~l------~~~~~~~~~  175 (440)
                      +.|+++..........+   .....|..+..++.-.|+...|..+++...+     ++...+...      .....+.|.
T Consensus       121 QmRd~~~~~~tr~~LLql~~~~ra~w~~~Avs~~L~g~y~~A~~il~ef~~t~~~~~s~~~~e~se~~Ly~n~i~~E~g~  200 (700)
T KOG1156|consen  121 QMRDYEGYLETRNQLLQLRPSQRASWIGFAVAQHLLGEYKMALEILEEFEKTQNTSPSKEDYEHSELLLYQNQILIEAGS  200 (700)
T ss_pred             HHHhhhhHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHHHHHHHccc
Confidence            88888877766655543   2445788888888888888888888776653     343333322      234556777


Q ss_pred             HHHHHHHHHHHHhcCCCCCHHHH-HHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhc-CCHHHHHHHH
Q 039362          176 YKEALVIFEEMRDVGSKANEVTL-VSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKC-GAIKEALIVF  253 (440)
Q Consensus       176 ~~~a~~~~~~~~~~~~~~~~~~~-~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-g~~~~A~~~~  253 (440)
                      .++|++.+..-...  ..|...+ .+-...+.+.+++++|..++..++..+ |.+...|..+..++.+. +..+....+|
T Consensus       201 ~q~ale~L~~~e~~--i~Dkla~~e~ka~l~~kl~~lEeA~~~y~~Ll~rn-Pdn~~Yy~~l~~~lgk~~d~~~~lk~ly  277 (700)
T KOG1156|consen  201 LQKALEHLLDNEKQ--IVDKLAFEETKADLLMKLGQLEEAVKVYRRLLERN-PDNLDYYEGLEKALGKIKDMLEALKALY  277 (700)
T ss_pred             HHHHHHHHHhhhhH--HHHHHHHhhhHHHHHHHHhhHHhHHHHHHHHHhhC-chhHHHHHHHHHHHHHHhhhHHHHHHHH
Confidence            88887776654332  2233333 234455678889999999999888875 55555555566666533 3333333666


Q ss_pred             hhhhhcCCchhhHHHHHHHHHhcCCh-HHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHhh----cC
Q 039362          254 HGVEKHQSDVLIWNAMIGGLAMHGFV-KESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGK----RG  328 (440)
Q Consensus       254 ~~~~~~~~~~~~~~~l~~~~~~~~~~-~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~----~~  328 (440)
                      ....+..|....-..+--......++ +..-.++..+.+.|+++-   +..+...|-.....+-..++...+..    .|
T Consensus       278 ~~ls~~y~r~e~p~Rlplsvl~~eel~~~vdkyL~~~l~Kg~p~v---f~dl~SLyk~p~k~~~le~Lvt~y~~~L~~~~  354 (700)
T KOG1156|consen  278 AILSEKYPRHECPRRLPLSVLNGEELKEIVDKYLRPLLSKGVPSV---FKDLRSLYKDPEKVAFLEKLVTSYQHSLSGTG  354 (700)
T ss_pred             HHHhhcCcccccchhccHHHhCcchhHHHHHHHHHHHhhcCCCch---hhhhHHHHhchhHhHHHHHHHHHHHhhccccc
Confidence            66655433322222221222222233 334455666777776653   33333333222211111111111111    11


Q ss_pred             ----------CCCCcch--HHHHHHHHHhcCCHHHHHHHHhcC-CCCccH-hHHHHHHHHHHhcCChhHHHHHHHHHHhc
Q 039362          329 ----------MVPKSEH--YACMVDALSRAGQVTEAYEFICQM-PLEPTA-SMLGSLLTGCMNHGKLDLAEIVGKKLVEL  394 (440)
Q Consensus       329 ----------~~~~~~~--~~~l~~~~~~~~~~~~a~~~~~~~-~~~p~~-~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  394 (440)
                                -+|....  +..+++.+-+.|+++.|..+++.. +..|+. ..|..-.+.+...|++++|..+++++.++
T Consensus       355 ~f~~~D~~~~E~PttllWt~y~laqh~D~~g~~~~A~~yId~AIdHTPTliEly~~KaRI~kH~G~l~eAa~~l~ea~el  434 (700)
T KOG1156|consen  355 MFNFLDDGKQEPPTTLLWTLYFLAQHYDKLGDYEVALEYIDLAIDHTPTLIELYLVKARIFKHAGLLDEAAAWLDEAQEL  434 (700)
T ss_pred             CCCcccccccCCchHHHHHHHHHHHHHHHcccHHHHHHHHHHHhccCchHHHHHHHHHHHHHhcCChHHHHHHHHHHHhc
Confidence                      1344333  346788899999999999999998 767765 55666678888999999999999999999


Q ss_pred             CCCCCchHHHHHHHHHhccChHHHHHHHHHHHhcCC
Q 039362          395 QPDHDGRYVGLSNVYAIFKRWDEARTTREAMETRGV  430 (440)
Q Consensus       395 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  430 (440)
                      +-.|...-..-+.-..++++.++|.++....-+.|.
T Consensus       435 D~aDR~INsKcAKYmLrAn~i~eA~~~~skFTr~~~  470 (700)
T KOG1156|consen  435 DTADRAINSKCAKYMLRANEIEEAEEVLSKFTREGF  470 (700)
T ss_pred             cchhHHHHHHHHHHHHHccccHHHHHHHHHhhhccc
Confidence            977654444677788899999999999888877664

>PRK12370 invasion protein regulator; Provisional

Probab=99.49  E-value=8.9e-12  Score=116.51  Aligned_cols=229  Identities=12%  Similarity=-0.045  Sum_probs=176.5

Q ss_pred             CHHHHHHHHHHHH-----hcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHh---------cCCHHHHHHHHhhhhhc
Q 039362          194 NEVTLVSVLCACA-----HLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAK---------CGAIKEALIVFHGVEKH  259 (440)
Q Consensus       194 ~~~~~~~l~~~~~-----~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~---------~g~~~~A~~~~~~~~~~  259 (440)
                      +...|...+.+..     ..+++++|...+++..+.. |.+...+..+..+|..         .+++++|...++++.+.
T Consensus       255 ~~da~~~~lrg~~~~~~~~~~~~~~A~~~~~~Al~ld-P~~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~Al~l  333 (553)
T PRK12370        255 SIDSTMVYLRGKHELNQYTPYSLQQALKLLTQCVNMS-PNSIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKATEL  333 (553)
T ss_pred             ChHHHHHHHHhHHHHHccCHHHHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHHhc
Confidence            3444545554432     1235679999999999876 5566677777666542         34589999999999988


Q ss_pred             CC-chhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCCc-chHH
Q 039362          260 QS-DVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKS-EHYA  337 (440)
Q Consensus       260 ~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~  337 (440)
                      .| +...+..+...+...|++++|+..|+++.+.+ +.+...+..+...+...|++++|+..++++.+..  |+. ..+.
T Consensus       334 dP~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l~--P~~~~~~~  410 (553)
T PRK12370        334 DHNNPQALGLLGLINTIHSEYIVGSLLFKQANLLS-PISADIKYYYGWNLFMAGQLEEALQTINECLKLD--PTRAAAGI  410 (553)
T ss_pred             CCCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CCChhhHH
Confidence            77 56778888888999999999999999999875 4456678888889999999999999999999864  432 2333


Q ss_pred             HHHHHHHhcCCHHHHHHHHhcC--CCCcc-HhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCCchHHHHHHHHHhccC
Q 039362          338 CMVDALSRAGQVTEAYEFICQM--PLEPT-ASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKR  414 (440)
Q Consensus       338 ~l~~~~~~~~~~~~a~~~~~~~--~~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  414 (440)
                      .++..+...|++++|...+++.  ...|+ +..+..+..++...|++++|...++++....|.+......+...|...| 
T Consensus       411 ~~~~~~~~~g~~eeA~~~~~~~l~~~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-  489 (553)
T PRK12370        411 TKLWITYYHTGIDDAIRLGDELRSQHLQDNPILLSMQVMFLSLKGKHELARKLTKEISTQEITGLIAVNLLYAEYCQNS-  489 (553)
T ss_pred             HHHHHHHhccCHHHHHHHHHHHHHhccccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhccchhHHHHHHHHHHHhccH-
Confidence            4455577789999999999887  22354 4456778888889999999999999988888887777888888888888 


Q ss_pred             hHHHHHHHHHHHhc
Q 039362          415 WDEARTTREAMETR  428 (440)
Q Consensus       415 ~~~A~~~~~~~~~~  428 (440)
                       ++|...++++.+.
T Consensus       490 -~~a~~~l~~ll~~  502 (553)
T PRK12370        490 -ERALPTIREFLES  502 (553)
T ss_pred             -HHHHHHHHHHHHH
Confidence             4888888887664

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.48  E-value=3.9e-11  Score=100.16  Aligned_cols=163  Identities=12%  Similarity=0.094  Sum_probs=73.2

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHH
Q 039362          161 VSWSALIDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMY  240 (440)
Q Consensus       161 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  240 (440)
                      ..+..+...+...|++++|.+.+++..+.. +.+...+..+...+...|++++|...+++..+.. +.+...+..+...+
T Consensus        32 ~~~~~la~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~~~~~  109 (234)
T TIGR02521        32 KIRVQLALGYLEQGDLEVAKENLDKALEHD-PDDYLAYLALALYYQQLGELEKAEDSFRRALTLN-PNNGDVLNNYGTFL  109 (234)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHH
Confidence            344445555555555555555555554432 2233444444455555555555555555555443 33334444444455


Q ss_pred             HhcCCHHHHHHHHhhhhhcC--C-chhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHH
Q 039362          241 AKCGAIKEALIVFHGVEKHQ--S-DVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEA  317 (440)
Q Consensus       241 ~~~g~~~~A~~~~~~~~~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a  317 (440)
                      ...|++++|...++++....  + ....+..+...+...|++++|...+.+..... +.+...+..+...+...|++++|
T Consensus       110 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A  188 (234)
T TIGR02521       110 CQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQID-PQRPESLLELAELYYLRGQYKDA  188 (234)
T ss_pred             HHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCChHHHHHHHHHHHHcCCHHHH
Confidence            55555555555555444321  1 12233333444444444444444444444331 11223333344444444444444


Q ss_pred             HHHHHHHhh
Q 039362          318 WYFFKSLGK  326 (440)
Q Consensus       318 ~~~~~~~~~  326 (440)
                      ...+++..+
T Consensus       189 ~~~~~~~~~  197 (234)
T TIGR02521       189 RAYLERYQQ  197 (234)
T ss_pred             HHHHHHHHH
Confidence            444444433

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.

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

Probab=99.46  E-value=3.6e-09  Score=88.93  Aligned_cols=273  Identities=10%  Similarity=-0.021  Sum_probs=171.1

Q ss_pred             chhhHHHHHHHHHhcCChHHHHHHHhhCCCCchhhH---HHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHH
Q 039362          128 MSVSWNSMLDGYAKCGEMNMARQVFELMPERNVVSW---SALIDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCA  204 (440)
Q Consensus       128 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  204 (440)
                      |......+..++...|+.++|+..|++...-|+.+.   ....-.+.+.|++++...+...+.... .-+...+..-+..
T Consensus       231 NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~~dpy~i~~MD~Ya~LL~~eg~~e~~~~L~~~Lf~~~-~~ta~~wfV~~~~  309 (564)
T KOG1174|consen  231 NEHLMMALGKCLYYNGDYFQAEDIFSSTLCANPDNVEAMDLYAVLLGQEGGCEQDSALMDYLFAKV-KYTASHWFVHAQL  309 (564)
T ss_pred             cHHHHHHHhhhhhhhcCchHHHHHHHHHhhCChhhhhhHHHHHHHHHhccCHhhHHHHHHHHHhhh-hcchhhhhhhhhh
Confidence            455666677777777777777777777654333222   222333456677777777666665432 1222233333334


Q ss_pred             HHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCC-chhhHHHHHHHHHhcCChHHHH
Q 039362          205 CAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQS-DVLIWNAMIGGLAMHGFVKESL  283 (440)
Q Consensus       205 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~  283 (440)
                      ....+++..|..+-++..+.+ +.+...+..-..++...|+.++|.-.|+......| +...|..++..|...|++.+|.
T Consensus       310 l~~~K~~~rAL~~~eK~I~~~-~r~~~alilKG~lL~~~~R~~~A~IaFR~Aq~Lap~rL~~Y~GL~hsYLA~~~~kEA~  388 (564)
T KOG1174|consen  310 LYDEKKFERALNFVEKCIDSE-PRNHEALILKGRLLIALERHTQAVIAFRTAQMLAPYRLEIYRGLFHSYLAQKRFKEAN  388 (564)
T ss_pred             hhhhhhHHHHHHHHHHHhccC-cccchHHHhccHHHHhccchHHHHHHHHHHHhcchhhHHHHHHHHHHHHhhchHHHHH
Confidence            445667777777777766655 44555555555667777777777777777776654 6777778888888778777777


Q ss_pred             HHHHHHHHcCCCccHhhHHHHH-HHHH-cCCChHHHHHHHHHHhhcCCCCC-cchHHHHHHHHHhcCCHHHHHHHHhcC-
Q 039362          284 ELFTEMQIVGITPDEITFLGLL-SACA-HGGLVMEAWYFFKSLGKRGMVPK-SEHYACMVDALSRAGQVTEAYEFICQM-  359 (440)
Q Consensus       284 ~~~~~m~~~~~~p~~~~~~~l~-~~~~-~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~-  359 (440)
                      -+-...... ++.+..++..+. ..|. ....-++|.+++++..+.  .|+ ....+.+...+...|+.+.++.++++. 
T Consensus       389 ~~An~~~~~-~~~sA~~LtL~g~~V~~~dp~~rEKAKkf~ek~L~~--~P~Y~~AV~~~AEL~~~Eg~~~D~i~LLe~~L  465 (564)
T KOG1174|consen  389 ALANWTIRL-FQNSARSLTLFGTLVLFPDPRMREKAKKFAEKSLKI--NPIYTPAVNLIAELCQVEGPTKDIIKLLEKHL  465 (564)
T ss_pred             HHHHHHHHH-hhcchhhhhhhcceeeccCchhHHHHHHHHHhhhcc--CCccHHHHHHHHHHHHhhCccchHHHHHHHHH
Confidence            666654433 234445555442 2222 223346677777766653  343 233455666677777788888887776 


Q ss_pred             CCCccHhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCCchHHHH
Q 039362          360 PLEPTASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGL  405 (440)
Q Consensus       360 ~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l  405 (440)
                      ...||....+.|...+...+.+.+|.+.|..+++.+|.+..+...+
T Consensus       466 ~~~~D~~LH~~Lgd~~~A~Ne~Q~am~~y~~ALr~dP~~~~sl~Gl  511 (564)
T KOG1174|consen  466 IIFPDVNLHNHLGDIMRAQNEPQKAMEYYYKALRQDPKSKRTLRGL  511 (564)
T ss_pred             hhccccHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCccchHHHHHH
Confidence            6677777777788877777788888888888888887776554433

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

Probab=99.46  E-value=3e-10  Score=95.17  Aligned_cols=266  Identities=12%  Similarity=0.047  Sum_probs=201.5

Q ss_pred             CCCcHHHHHHHHHHHHhcCCHHHHHHHhhCCCCCchhhHH---HHHHHHHhcCChHHHHHHHhhCCC---CchhhHHHHH
Q 039362           94 YESDLFISNSLIHMYGSCGDIVYAREVFDGMPTKMSVSWN---SMLDGYAKCGEMNMARQVFELMPE---RNVVSWSALI  167 (440)
Q Consensus        94 ~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~---~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~l~  167 (440)
                      ++.|+.....+..++...|+.++|+..|++....|+.+..   ...-.+.+.|+.+....+...+..   .....|..-+
T Consensus       228 lr~NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~~dpy~i~~MD~Ya~LL~~eg~~e~~~~L~~~Lf~~~~~ta~~wfV~~  307 (564)
T KOG1174|consen  228 LRCNEHLMMALGKCLYYNGDYFQAEDIFSSTLCANPDNVEAMDLYAVLLGQEGGCEQDSALMDYLFAKVKYTASHWFVHA  307 (564)
T ss_pred             CCccHHHHHHHhhhhhhhcCchHHHHHHHHHhhCChhhhhhHHHHHHHHHhccCHhhHHHHHHHHHhhhhcchhhhhhhh
Confidence            5667888999999999999999999999988765544332   223445677888888777776654   3445566666


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHH
Q 039362          168 DGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIK  247 (440)
Q Consensus       168 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  247 (440)
                      .......+++.|+.+-++.++.+ +.+...+..-...+...+++++|.-.|+...... |.+...|..|+.+|.-.|++.
T Consensus       308 ~~l~~~K~~~rAL~~~eK~I~~~-~r~~~alilKG~lL~~~~R~~~A~IaFR~Aq~La-p~rL~~Y~GL~hsYLA~~~~k  385 (564)
T KOG1174|consen  308 QLLYDEKKFERALNFVEKCIDSE-PRNHEALILKGRLLIALERHTQAVIAFRTAQMLA-PYRLEIYRGLFHSYLAQKRFK  385 (564)
T ss_pred             hhhhhhhhHHHHHHHHHHHhccC-cccchHHHhccHHHHhccchHHHHHHHHHHHhcc-hhhHHHHHHHHHHHHhhchHH
Confidence            67778889999999999988764 4455566555667788999999999999887765 678899999999999999999


Q ss_pred             HHHHHHhhhhhcCC-chhhHHHHH-HHH-HhcCChHHHHHHHHHHHHcCCCccH-hhHHHHHHHHHcCCChHHHHHHHHH
Q 039362          248 EALIVFHGVEKHQS-DVLIWNAMI-GGL-AMHGFVKESLELFTEMQIVGITPDE-ITFLGLLSACAHGGLVMEAWYFFKS  323 (440)
Q Consensus       248 ~A~~~~~~~~~~~~-~~~~~~~l~-~~~-~~~~~~~~a~~~~~~m~~~~~~p~~-~~~~~l~~~~~~~~~~~~a~~~~~~  323 (440)
                      +|.-.-+...+.-| +..+...+. ..+ .....-++|..+++.....  .|+- ...+.+...|...|..+.++.++++
T Consensus       386 EA~~~An~~~~~~~~sA~~LtL~g~~V~~~dp~~rEKAKkf~ek~L~~--~P~Y~~AV~~~AEL~~~Eg~~~D~i~LLe~  463 (564)
T KOG1174|consen  386 EANALANWTIRLFQNSARSLTLFGTLVLFPDPRMREKAKKFAEKSLKI--NPIYTPAVNLIAELCQVEGPTKDIIKLLEK  463 (564)
T ss_pred             HHHHHHHHHHHHhhcchhhhhhhcceeeccCchhHHHHHHHHHhhhcc--CCccHHHHHHHHHHHHhhCccchHHHHHHH
Confidence            99887776654433 444544442 222 2223347788888876654  5553 4567777888899999999999999


Q ss_pred             HhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcC-CCCccH
Q 039362          324 LGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQM-PLEPTA  365 (440)
Q Consensus       324 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p~~  365 (440)
                      ....  .||....+.|.+.+...+.+.+|++.|... .+.|+.
T Consensus       464 ~L~~--~~D~~LH~~Lgd~~~A~Ne~Q~am~~y~~ALr~dP~~  504 (564)
T KOG1174|consen  464 HLII--FPDVNLHNHLGDIMRAQNEPQKAMEYYYKALRQDPKS  504 (564)
T ss_pred             HHhh--ccccHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCccc
Confidence            8873  589999999999999999999999999877 666644

>KOG2047 consensus mRNA splicing factor [RNA processing and modification]

Probab=99.45  E-value=4e-09  Score=93.51  Aligned_cols=112  Identities=13%  Similarity=0.136  Sum_probs=48.4

Q ss_pred             ChHHHHHHHHHHhhcCCCCCcch--HHHHHHHHHhcCCHHHHHHHHhcC--CCCcc--HhHHHHHHHHHHhcCChhHHHH
Q 039362          313 LVMEAWYFFKSLGKRGMVPKSEH--YACMVDALSRAGQVTEAYEFICQM--PLEPT--ASMLGSLLTGCMNHGKLDLAEI  386 (440)
Q Consensus       313 ~~~~a~~~~~~~~~~~~~~~~~~--~~~l~~~~~~~~~~~~a~~~~~~~--~~~p~--~~~~~~l~~~~~~~g~~~~a~~  386 (440)
                      .++.|..+|++.++ |.+|...-  |......--+.|-...|+++++++  ++++.  ...|+..+.-....=-+.....
T Consensus       565 klEraRdLFEqaL~-~Cpp~~aKtiyLlYA~lEEe~GLar~amsiyerat~~v~~a~~l~myni~I~kaae~yGv~~TR~  643 (835)
T KOG2047|consen  565 KLERARDLFEQALD-GCPPEHAKTIYLLYAKLEEEHGLARHAMSIYERATSAVKEAQRLDMYNIYIKKAAEIYGVPRTRE  643 (835)
T ss_pred             CHHHHHHHHHHHHh-cCCHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhCCcccHH
Confidence            45566666666655 33332211  111122222445555566666655  23332  1344444443332222333445


Q ss_pred             HHHHHHhcCCCCCc--hHHHHHHHHHhccChHHHHHHHHHH
Q 039362          387 VGKKLVELQPDHDG--RYVGLSNVYAIFKRWDEARTTREAM  425 (440)
Q Consensus       387 ~~~~~~~~~~~~~~--~~~~l~~~~~~~g~~~~A~~~~~~~  425 (440)
                      +|+++++.-|++..  .....++.-.+.|..+.|+.++.--
T Consensus       644 iYekaIe~Lp~~~~r~mclrFAdlEtklGEidRARaIya~~  684 (835)
T KOG2047|consen  644 IYEKAIESLPDSKAREMCLRFADLETKLGEIDRARAIYAHG  684 (835)
T ss_pred             HHHHHHHhCChHHHHHHHHHHHHHhhhhhhHHHHHHHHHhh
Confidence            55555554443322  2223334444455555555555433

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.45  E-value=1e-09  Score=88.12  Aligned_cols=389  Identities=13%  Similarity=0.005  Sum_probs=251.6

Q ss_pred             HHHHHHHHHccCChhhHHHHHHHHHHcCCCCCcchHHHHHHHhhchhcHHHHHHHHHHHHHcCCCCcHHHH-HHHHHHHH
Q 039362           31 WNTVIRGYSKSKNPNKSISLFVKMLRAGVSPDHLTYPFLAKASGRLAKRELAVAVHAQIAKTGYESDLFIS-NSLIHMYG  109 (440)
Q Consensus        31 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-~~l~~~~~  109 (440)
                      +++.+..+.+..+++.|++++..-.+.. +.+....+.|..+|....++..|-..++++...-+  ...-| -.-...+.
T Consensus        13 ftaviy~lI~d~ry~DaI~~l~s~~Er~-p~~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql~P--~~~qYrlY~AQSLY   89 (459)
T KOG4340|consen   13 FTAVVYRLIRDARYADAIQLLGSELERS-PRSRAGLSLLGYCYYRLQEFALAAECYEQLGQLHP--ELEQYRLYQAQSLY   89 (459)
T ss_pred             hHHHHHHHHHHhhHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCh--HHHHHHHHHHHHHH
Confidence            4566667788899999999998877753 23667788889999999999999999999987643  33333 22345667


Q ss_pred             hcCCHHHHHHHhhCCCCCc-hhhHHHHH--HHHHhcCChHHHHHHHhhCCC-CchhhHHHHHHHHHhcCCHHHHHHHHHH
Q 039362          110 SCGDIVYAREVFDGMPTKM-SVSWNSML--DGYAKCGEMNMARQVFELMPE-RNVVSWSALIDGYVKCGDYKEALVIFEE  185 (440)
Q Consensus       110 ~~g~~~~a~~~~~~~~~~~-~~~~~~l~--~~~~~~~~~~~a~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~  185 (440)
                      +.+.+..|.++...|.+.+ ...-..-+  ......+++..+..++++.+. .+..+.+.......+.|+++.|.+-|+.
T Consensus        90 ~A~i~ADALrV~~~~~D~~~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~en~Ad~~in~gCllykegqyEaAvqkFqa  169 (459)
T KOG4340|consen   90 KACIYADALRVAFLLLDNPALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPSENEADGQINLGCLLYKEGQYEAAVQKFQA  169 (459)
T ss_pred             HhcccHHHHHHHHHhcCCHHHHHHHHHHHHHHhcccccCcchHHHHHhccCCCccchhccchheeeccccHHHHHHHHHH
Confidence            7899999999999888742 22211122  234567899999999999984 6777777777788899999999999999


Q ss_pred             HHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCch----------------------------hhHHHHH
Q 039362          186 MRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTL----------------------------PLQTSLI  237 (440)
Q Consensus       186 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----------------------------~~~~~l~  237 (440)
                      ..+-+---+...|+..+ +..+.|+.+.|.+...++.++|+...+                            ..++.-.
T Consensus       170 AlqvsGyqpllAYniAL-aHy~~~qyasALk~iSEIieRG~r~HPElgIGm~tegiDvrsvgNt~~lh~Sal~eAfNLKa  248 (459)
T KOG4340|consen  170 ALQVSGYQPLLAYNLAL-AHYSSRQYASALKHISEIIERGIRQHPELGIGMTTEGIDVRSVGNTLVLHQSALVEAFNLKA  248 (459)
T ss_pred             HHhhcCCCchhHHHHHH-HHHhhhhHHHHHHHHHHHHHhhhhcCCccCccceeccCchhcccchHHHHHHHHHHHhhhhh
Confidence            87765444556777655 445778999999999999988754321                            1222233


Q ss_pred             HHHHhcCCHHHHHHHHhhhhhc---CCchhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCCh
Q 039362          238 DMYAKCGAIKEALIVFHGVEKH---QSDVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLV  314 (440)
Q Consensus       238 ~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~  314 (440)
                      ..+.+.|+++.|.+.+..|+..   ..|++|...+.-.- ..+++.+..+-+.-+.+.+ +-...||..++-.||+..-+
T Consensus       249 AIeyq~~n~eAA~eaLtDmPPRaE~elDPvTLHN~Al~n-~~~~p~~g~~KLqFLL~~n-PfP~ETFANlLllyCKNeyf  326 (459)
T KOG4340|consen  249 AIEYQLRNYEAAQEALTDMPPRAEEELDPVTLHNQALMN-MDARPTEGFEKLQFLLQQN-PFPPETFANLLLLYCKNEYF  326 (459)
T ss_pred             hhhhhcccHHHHHHHhhcCCCcccccCCchhhhHHHHhc-ccCCccccHHHHHHHHhcC-CCChHHHHHHHHHHhhhHHH
Confidence            3456789999999999988743   34677766554332 2345555555566565554 33456888888899999888


Q ss_pred             HHHHHHHHHHhhcCCC-CCcchHHHHHHHHHh-cCCHHHHHHHHhcCCCCc--cHhHHHHHHHHHHhcCC---hhHHHHH
Q 039362          315 MEAWYFFKSLGKRGMV-PKSEHYACMVDALSR-AGQVTEAYEFICQMPLEP--TASMLGSLLTGCMNHGK---LDLAEIV  387 (440)
Q Consensus       315 ~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~-~~~~~~a~~~~~~~~~~p--~~~~~~~l~~~~~~~g~---~~~a~~~  387 (440)
                      +.|-.++.+-....++ .+...|+ |+.++.- .-..++|.+-++.+.-.-  .......-+..-...++   ...+++-
T Consensus       327 ~lAADvLAEn~~lTyk~L~~Yly~-LLdaLIt~qT~pEea~KKL~~La~~l~~kLRklAi~vQe~r~~~dd~a~R~ai~~  405 (459)
T KOG4340|consen  327 DLAADVLAENAHLTYKFLTPYLYD-LLDALITCQTAPEEAFKKLDGLAGMLTEKLRKLAIQVQEARHNRDDEAIRKAVNE  405 (459)
T ss_pred             hHHHHHHhhCcchhHHHhhHHHHH-HHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccHHHHHHHHHH
Confidence            8888777653322111 1222333 3444443 345566666555441000  00000001111111111   1223334


Q ss_pred             HHHHHhcCCCCCchHHHHHHHHHhccChHHHHHHHHHHHhcC
Q 039362          388 GKKLVELQPDHDGRYVGLSNVYAIFKRWDEARTTREAMETRG  429 (440)
Q Consensus       388 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  429 (440)
                      +++.++..-   .+..+.++.|++..++..+.++|..-++-.
T Consensus       406 Yd~~LE~YL---PVlMa~AkiyW~~~Dy~~vEk~Fr~SvefC  444 (459)
T KOG4340|consen  406 YDETLEKYL---PVLMAQAKIYWNLEDYPMVEKIFRKSVEFC  444 (459)
T ss_pred             HHHHHHHHH---HHHHHHHHhhccccccHHHHHHHHHHHhhh
Confidence            444444331   145677788899999999999998776643

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.44  E-value=1.9e-11  Score=104.64  Aligned_cols=224  Identities=11%  Similarity=-0.087  Sum_probs=163.0

Q ss_pred             HHhcCCHHHHHHHHHHHHhcC-CCCC--HHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCH
Q 039362          170 YVKCGDYKEALVIFEEMRDVG-SKAN--EVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAI  246 (440)
Q Consensus       170 ~~~~~~~~~a~~~~~~~~~~~-~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  246 (440)
                      ....++.+.++.-+.+++... ..|+  ...+..+...+...|+.++|...|++..+.. +.+...+..+...+...|++
T Consensus        36 ~~~~~~~e~~i~~~~~~l~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~~~~~g~~  114 (296)
T PRK11189         36 LQPTLQQEVILARLNQILASRDLTDEERAQLHYERGVLYDSLGLRALARNDFSQALALR-PDMADAYNYLGIYLTQAGNF  114 (296)
T ss_pred             cCCchHHHHHHHHHHHHHccccCCcHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHCCCH
Confidence            344567788888888887643 1222  3457777778899999999999999999886 67788999999999999999


Q ss_pred             HHHHHHHhhhhhcCCc-hhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHh
Q 039362          247 KEALIVFHGVEKHQSD-VLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLG  325 (440)
Q Consensus       247 ~~A~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  325 (440)
                      ++|...|++..+..|+ ...|..+...+...|++++|.+.|+...+.  .|+..........+...++.++|...|.+..
T Consensus       115 ~~A~~~~~~Al~l~P~~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~--~P~~~~~~~~~~l~~~~~~~~~A~~~l~~~~  192 (296)
T PRK11189        115 DAAYEAFDSVLELDPTYNYAYLNRGIALYYGGRYELAQDDLLAFYQD--DPNDPYRALWLYLAESKLDPKQAKENLKQRY  192 (296)
T ss_pred             HHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHccCCHHHHHHHHHHHH
Confidence            9999999999988774 677888888999999999999999998876  4443322222223445678999999997765


Q ss_pred             hcCCCCCcchHHHHHHHHHhcCCHHHH--HHHHhcC-C----CCc-cHhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCC
Q 039362          326 KRGMVPKSEHYACMVDALSRAGQVTEA--YEFICQM-P----LEP-TASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPD  397 (440)
Q Consensus       326 ~~~~~~~~~~~~~l~~~~~~~~~~~~a--~~~~~~~-~----~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  397 (440)
                      ... .|+... ..+  .....|+..++  .+.+.+. .    +.| ....|..+...+.+.|++++|+..|+++.+.+|+
T Consensus       193 ~~~-~~~~~~-~~~--~~~~lg~~~~~~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~~~  268 (296)
T PRK11189        193 EKL-DKEQWG-WNI--VEFYLGKISEETLMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALANNVY  268 (296)
T ss_pred             hhC-CccccH-HHH--HHHHccCCCHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCc
Confidence            432 233222 222  33345555433  3333322 2    122 2357889999999999999999999999999976


Q ss_pred             CCc
Q 039362          398 HDG  400 (440)
Q Consensus       398 ~~~  400 (440)
                      +..
T Consensus       269 ~~~  271 (296)
T PRK11189        269 NFV  271 (296)
T ss_pred             hHH
Confidence            543

>KOG2047 consensus mRNA splicing factor [RNA processing and modification]

Probab=99.44  E-value=1.7e-08  Score=89.59  Aligned_cols=390  Identities=14%  Similarity=0.134  Sum_probs=236.8

Q ss_pred             HHHHHHHHHHccCChhhHHHHHHHHHHc-CCCCCcchHHHHHHHhhchhcHHHHHHHHHHHHHcCCCCcHHHHHHHHHHH
Q 039362           30 YWNTVIRGYSKSKNPNKSISLFVKMLRA-GVSPDHLTYPFLAKASGRLAKRELAVAVHAQIAKTGYESDLFISNSLIHMY  108 (440)
Q Consensus        30 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  108 (440)
                      .|-..+..+.++|+.......|+..+.. -+.-....|...+....+.+-++.+.+++++.++..    +..-.-.+..+
T Consensus       104 Iwl~Ylq~l~~Q~~iT~tR~tfdrALraLpvtqH~rIW~lyl~Fv~~~~lPets~rvyrRYLk~~----P~~~eeyie~L  179 (835)
T KOG2047|consen  104 IWLDYLQFLIKQGLITRTRRTFDRALRALPVTQHDRIWDLYLKFVESHGLPETSIRVYRRYLKVA----PEAREEYIEYL  179 (835)
T ss_pred             HHHHHHHHHHhcchHHHHHHHHHHHHHhCchHhhccchHHHHHHHHhCCChHHHHHHHHHHHhcC----HHHHHHHHHHH
Confidence            4555566666667776666666665543 122234456666666666666667777776665542    22244555666


Q ss_pred             HhcCCHHHHHHHhhCCCCC----------------------------------------------c--hhhHHHHHHHHH
Q 039362          109 GSCGDIVYAREVFDGMPTK----------------------------------------------M--SVSWNSMLDGYA  140 (440)
Q Consensus       109 ~~~g~~~~a~~~~~~~~~~----------------------------------------------~--~~~~~~l~~~~~  140 (440)
                      +..+++++|.+.+..+...                                              |  ...|++|...|.
T Consensus       180 ~~~d~~~eaa~~la~vln~d~f~sk~gkSn~qlw~elcdlis~~p~~~~slnvdaiiR~gi~rftDq~g~Lw~SLAdYYI  259 (835)
T KOG2047|consen  180 AKSDRLDEAAQRLATVLNQDEFVSKKGKSNHQLWLELCDLISQNPDKVQSLNVDAIIRGGIRRFTDQLGFLWCSLADYYI  259 (835)
T ss_pred             HhccchHHHHHHHHHhcCchhhhhhcccchhhHHHHHHHHHHhCcchhcccCHHHHHHhhcccCcHHHHHHHHHHHHHHH
Confidence            6666666666666554311                                              1  124777888888


Q ss_pred             hcCChHHHHHHHhhCCC--CchhhHHHHHHHHHhc----------------C------CHHHHHHHHHHHHhcCC-----
Q 039362          141 KCGEMNMARQVFELMPE--RNVVSWSALIDGYVKC----------------G------DYKEALVIFEEMRDVGS-----  191 (440)
Q Consensus       141 ~~~~~~~a~~~~~~~~~--~~~~~~~~l~~~~~~~----------------~------~~~~a~~~~~~~~~~~~-----  191 (440)
                      +.|.+++|..+|++...  -++..|..+-++|+.-                +      +++-.+..|+.+.....     
T Consensus       260 r~g~~ekarDvyeeai~~v~tvrDFt~ifd~Ya~FEE~~~~~~me~a~~~~~n~ed~~dl~~~~a~~e~lm~rr~~~lNs  339 (835)
T KOG2047|consen  260 RSGLFEKARDVYEEAIQTVMTVRDFTQIFDAYAQFEESCVAAKMELADEESGNEEDDVDLELHMARFESLMNRRPLLLNS  339 (835)
T ss_pred             HhhhhHHHHHHHHHHHHhheehhhHHHHHHHHHHHHHHHHHHHHhhhhhcccChhhhhhHHHHHHHHHHHHhccchHHHH
Confidence            88888888888877654  1222233333332211                1      12223333444333210     


Q ss_pred             ------CCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC------chhhHHHHHHHHHhcCCHHHHHHHHhhhhhc
Q 039362          192 ------KANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSL------TLPLQTSLIDMYAKCGAIKEALIVFHGVEKH  259 (440)
Q Consensus       192 ------~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~------~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  259 (440)
                            +.+...+..-+.  ...|+..+-...+.++.+.- .|      -...|..+...|-..|+++.|..+|++..+.
T Consensus       340 VlLRQn~~nV~eW~kRV~--l~e~~~~~~i~tyteAv~~v-dP~ka~Gs~~~Lw~~faklYe~~~~l~~aRvifeka~~V  416 (835)
T KOG2047|consen  340 VLLRQNPHNVEEWHKRVK--LYEGNAAEQINTYTEAVKTV-DPKKAVGSPGTLWVEFAKLYENNGDLDDARVIFEKATKV  416 (835)
T ss_pred             HHHhcCCccHHHHHhhhh--hhcCChHHHHHHHHHHHHcc-CcccCCCChhhHHHHHHHHHHhcCcHHHHHHHHHHhhcC
Confidence                  111222222221  23456666777777766542 22      1246788899999999999999999998865


Q ss_pred             C-Cc----hhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCC-----------c------cHhhHHHHHHHHHcCCChHHH
Q 039362          260 Q-SD----VLIWNAMIGGLAMHGFVKESLELFTEMQIVGIT-----------P------DEITFLGLLSACAHGGLVMEA  317 (440)
Q Consensus       260 ~-~~----~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~-----------p------~~~~~~~l~~~~~~~~~~~~a  317 (440)
                      . +.    ..+|..-...-.++.+++.|+++++.....--+           +      +...|...++.-...|-++..
T Consensus       417 ~y~~v~dLa~vw~~waemElrh~~~~~Al~lm~~A~~vP~~~~~~~yd~~~pvQ~rlhrSlkiWs~y~DleEs~gtfest  496 (835)
T KOG2047|consen  417 PYKTVEDLAEVWCAWAEMELRHENFEAALKLMRRATHVPTNPELEYYDNSEPVQARLHRSLKIWSMYADLEESLGTFEST  496 (835)
T ss_pred             CccchHHHHHHHHHHHHHHHhhhhHHHHHHHHHhhhcCCCchhhhhhcCCCcHHHHHHHhHHHHHHHHHHHHHhccHHHH
Confidence            2 22    245666667777888999999998886532111           1      122344555555566888888


Q ss_pred             HHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcC-C-C-CccH-hHHHHHHHHHHh---cCChhHHHHHHHH
Q 039362          318 WYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQM-P-L-EPTA-SMLGSLLTGCMN---HGKLDLAEIVGKK  390 (440)
Q Consensus       318 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~-~-~p~~-~~~~~l~~~~~~---~g~~~~a~~~~~~  390 (440)
                      ..+|+++.+..+. ++.........+-.+.-++++.+++++- . + -|++ .+|+..+.-+.+   ....+.|..+|++
T Consensus       497 k~vYdriidLria-TPqii~NyAmfLEeh~yfeesFk~YErgI~LFk~p~v~diW~tYLtkfi~rygg~klEraRdLFEq  575 (835)
T KOG2047|consen  497 KAVYDRIIDLRIA-TPQIIINYAMFLEEHKYFEESFKAYERGISLFKWPNVYDIWNTYLTKFIKRYGGTKLERARDLFEQ  575 (835)
T ss_pred             HHHHHHHHHHhcC-CHHHHHHHHHHHHhhHHHHHHHHHHHcCCccCCCccHHHHHHHHHHHHHHHhcCCCHHHHHHHHHH
Confidence            8999999987654 3333333344456777899999999987 2 2 2344 677777665543   3468999999999


Q ss_pred             HHhcCCCCCc--hHHHHHHHHHhccChHHHHHHHHHHHh
Q 039362          391 LVELQPDHDG--RYVGLSNVYAIFKRWDEARTTREAMET  427 (440)
Q Consensus       391 ~~~~~~~~~~--~~~~l~~~~~~~g~~~~A~~~~~~~~~  427 (440)
                      +++.-|+...  .|...+..--+-|.-..|..++++...
T Consensus       576 aL~~Cpp~~aKtiyLlYA~lEEe~GLar~amsiyerat~  614 (835)
T KOG2047|consen  576 ALDGCPPEHAKTIYLLYAKLEEEHGLARHAMSIYERATS  614 (835)
T ss_pred             HHhcCCHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHh
Confidence            9997775432  344555555566888899999988643

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.42  E-value=7.6e-09  Score=85.30  Aligned_cols=376  Identities=12%  Similarity=0.089  Sum_probs=195.0

Q ss_pred             CChhhHHHHhhhcC----CCChHHHHHHHHHHHccCChhhHHHHHHHHHHcCCCCCcchHHHHHHHhhchhcHHHHHHHH
Q 039362           11 GNIDYSCKVLSHLS----NPRIFYWNTVIRGYSKSKNPNKSISLFVKMLRAGVSPDHLTYPFLAKASGRLAKRELAVAVH   86 (440)
Q Consensus        11 g~~~~A~~~~~~~~----~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~   86 (440)
                      .++..|+.+++--.    +....+-..+...+.+.|++++|+..+..+... -.|+...+..|.-+..-.|.+.+|..+-
T Consensus        36 rDytGAislLefk~~~~~EEE~~~~lWia~C~fhLgdY~~Al~~Y~~~~~~-~~~~~el~vnLAcc~FyLg~Y~eA~~~~  114 (557)
T KOG3785|consen   36 RDYTGAISLLEFKLNLDREEEDSLQLWIAHCYFHLGDYEEALNVYTFLMNK-DDAPAELGVNLACCKFYLGQYIEAKSIA  114 (557)
T ss_pred             ccchhHHHHHHHhhccchhhhHHHHHHHHHHHHhhccHHHHHHHHHHHhcc-CCCCcccchhHHHHHHHHHHHHHHHHHH
Confidence            56777877776332    111122223556677889999999999887764 3566777777777777788888888765


Q ss_pred             HHHHHcCCCCcHHHHHHHHHHHHhcCCHHHHHHHhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHhhCCC--CchhhHH
Q 039362           87 AQIAKTGYESDLFISNSLIHMYGSCGDIVYAREVFDGMPTKMSVSWNSMLDGYAKCGEMNMARQVFELMPE--RNVVSWS  164 (440)
Q Consensus        87 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~~~~~~~  164 (440)
                      ...     +.++-.-..++....+.|+-++-..+-+.+.+.. ..--+|.+.....-.+.+|++++.++..  |+....|
T Consensus       115 ~ka-----~k~pL~~RLlfhlahklndEk~~~~fh~~LqD~~-EdqLSLAsvhYmR~HYQeAIdvYkrvL~dn~ey~alN  188 (557)
T KOG3785|consen  115 EKA-----PKTPLCIRLLFHLAHKLNDEKRILTFHSSLQDTL-EDQLSLASVHYMRMHYQEAIDVYKRVLQDNPEYIALN  188 (557)
T ss_pred             hhC-----CCChHHHHHHHHHHHHhCcHHHHHHHHHHHhhhH-HHHHhHHHHHHHHHHHHHHHHHHHHHHhcChhhhhhH
Confidence            443     2233344455566667777666665555554322 2334455555556678899999988875  3333444


Q ss_pred             H-HHHHHHhcCCHHHHHHHHHHHHhcCCCCCH-HHHHHHHHHHHhc--CChHHHH------------HHHHHHHHcCC--
Q 039362          165 A-LIDGYVKCGDYKEALVIFEEMRDVGSKANE-VTLVSVLCACAHL--GALDQGR------------MMLRYMIDKGL--  226 (440)
Q Consensus       165 ~-l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~--~~~~~a~------------~~~~~~~~~~~--  226 (440)
                      . +.-+|.+..-++-+.+++....+.  -||+ ...+..+....+.  |+..+.+            ...+.+.++++  
T Consensus       189 Vy~ALCyyKlDYydvsqevl~vYL~q--~pdStiA~NLkacn~fRl~ngr~ae~E~k~ladN~~~~~~f~~~l~rHNLVv  266 (557)
T KOG3785|consen  189 VYMALCYYKLDYYDVSQEVLKVYLRQ--FPDSTIAKNLKACNLFRLINGRTAEDEKKELADNIDQEYPFIEYLCRHNLVV  266 (557)
T ss_pred             HHHHHHHHhcchhhhHHHHHHHHHHh--CCCcHHHHHHHHHHHhhhhccchhHHHHHHHHhcccccchhHHHHHHcCeEE
Confidence            3 344666777777777777766654  3333 2222222222221  1111110            01111122111  


Q ss_pred             ---------------CCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCCchhhH-------------------------
Q 039362          227 ---------------SLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQSDVLIW-------------------------  266 (440)
Q Consensus       227 ---------------~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~-------------------------  266 (440)
                                     ..-+..-..|+-.|.+.++..+|..+.+.+....|.....                         
T Consensus       267 FrngEgALqVLP~L~~~IPEARlNL~iYyL~q~dVqeA~~L~Kdl~PttP~EyilKgvv~aalGQe~gSreHlKiAqqff  346 (557)
T KOG3785|consen  267 FRNGEGALQVLPSLMKHIPEARLNLIIYYLNQNDVQEAISLCKDLDPTTPYEYILKGVVFAALGQETGSREHLKIAQQFF  346 (557)
T ss_pred             EeCCccHHHhchHHHhhChHhhhhheeeecccccHHHHHHHHhhcCCCChHHHHHHHHHHHHhhhhcCcHHHHHHHHHHH
Confidence                           0011223345555777788888877777665333322221                         


Q ss_pred             ----------------HHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHhhcCCC
Q 039362          267 ----------------NAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKRGMV  330 (440)
Q Consensus       267 ----------------~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  330 (440)
                                      ..+.+.+.-..++++++-.+......-...|...| .+.++.+..|++.+|+++|-++....++
T Consensus       347 qlVG~Sa~ecDTIpGRQsmAs~fFL~~qFddVl~YlnSi~sYF~NdD~Fn~-N~AQAk~atgny~eaEelf~~is~~~ik  425 (557)
T KOG3785|consen  347 QLVGESALECDTIPGRQSMASYFFLSFQFDDVLTYLNSIESYFTNDDDFNL-NLAQAKLATGNYVEAEELFIRISGPEIK  425 (557)
T ss_pred             HHhcccccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcchhhh-HHHHHHHHhcChHHHHHHHhhhcChhhh
Confidence                            12222222222333333333333322111122222 2344555556666666666555443332


Q ss_pred             CCcchH-HHHHHHHHhcCCHHHHHHHHhcCCCCccHhH-HHHHHHHHHhcCChhHHHHHHHHHHhcCCC
Q 039362          331 PKSEHY-ACMVDALSRAGQVTEAYEFICQMPLEPTASM-LGSLLTGCMNHGKLDLAEIVGKKLVELQPD  397 (440)
Q Consensus       331 ~~~~~~-~~l~~~~~~~~~~~~a~~~~~~~~~~p~~~~-~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  397 (440)
                       |..+| ..|.++|.++++++-|.+++-++....+..+ +..+...|.+.+.+=-|.+.|+.+..++|.
T Consensus       426 -n~~~Y~s~LArCyi~nkkP~lAW~~~lk~~t~~e~fsLLqlIAn~CYk~~eFyyaaKAFd~lE~lDP~  493 (557)
T KOG3785|consen  426 -NKILYKSMLARCYIRNKKPQLAWDMMLKTNTPSERFSLLQLIANDCYKANEFYYAAKAFDELEILDPT  493 (557)
T ss_pred             -hhHHHHHHHHHHHHhcCCchHHHHHHHhcCCchhHHHHHHHHHHHHHHHHHHHHHHHhhhHHHccCCC
Confidence             33333 3445566666666666666666643333322 233344555666666666666666666544

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.41  E-value=6.9e-10  Score=95.17  Aligned_cols=127  Identities=8%  Similarity=-0.184  Sum_probs=67.2

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHH
Q 039362          162 SWSALIDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYA  241 (440)
Q Consensus       162 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  241 (440)
                      .|..+...|...|++++|...|++..+.. +.+...|..+...+...|++++|...|+...+.. +.+..++..+..++.
T Consensus        66 ~~~~~g~~~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~  143 (296)
T PRK11189         66 LHYERGVLYDSLGLRALARNDFSQALALR-PDMADAYNYLGIYLTQAGNFDAAYEAFDSVLELD-PTYNYAYLNRGIALY  143 (296)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHH
Confidence            35555555566666666666666655543 3344555555556666666666666666665544 334455555555556


Q ss_pred             hcCCHHHHHHHHhhhhhcCCchhhHHHHHHHHHhcCChHHHHHHHHHHH
Q 039362          242 KCGAIKEALIVFHGVEKHQSDVLIWNAMIGGLAMHGFVKESLELFTEMQ  290 (440)
Q Consensus       242 ~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~  290 (440)
                      ..|++++|...|++..+..|+..............+++++|...|.+..
T Consensus       144 ~~g~~~eA~~~~~~al~~~P~~~~~~~~~~l~~~~~~~~~A~~~l~~~~  192 (296)
T PRK11189        144 YGGRYELAQDDLLAFYQDDPNDPYRALWLYLAESKLDPKQAKENLKQRY  192 (296)
T ss_pred             HCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHccCCHHHHHHHHHHHH
Confidence            6666666666666655554433211111112233455566666664433

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

Probab=99.41  E-value=2.1e-10  Score=103.78  Aligned_cols=257  Identities=15%  Similarity=0.089  Sum_probs=172.6

Q ss_pred             HHHHhcCCHHHHHHHHHHHHhcCCCCCH-HHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhc---
Q 039362          168 DGYVKCGDYKEALVIFEEMRDVGSKANE-VTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKC---  243 (440)
Q Consensus       168 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---  243 (440)
                      ..+...|++++|++.++.-...  .+|. .........+.+.|+.++|..++..+++.+ |.+..-|..+..+..-.   
T Consensus        12 ~il~e~g~~~~AL~~L~~~~~~--I~Dk~~~~E~rA~ll~kLg~~~eA~~~y~~Li~rN-Pdn~~Yy~~L~~~~g~~~~~   88 (517)
T PF12569_consen   12 SILEEAGDYEEALEHLEKNEKQ--ILDKLAVLEKRAELLLKLGRKEEAEKIYRELIDRN-PDNYDYYRGLEEALGLQLQL   88 (517)
T ss_pred             HHHHHCCCHHHHHHHHHhhhhh--CCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHhhhccc
Confidence            3456677777777777664333  3333 344455666677777777777777777776 55555556665555222   


Q ss_pred             --CCHHHHHHHHhhhhhcCCchhhHHHHHHHHHhcCChH-HHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHH
Q 039362          244 --GAIKEALIVFHGVEKHQSDVLIWNAMIGGLAMHGFVK-ESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYF  320 (440)
Q Consensus       244 --g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~-~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~  320 (440)
                        .+.+....+|+++....|.......+.-.+.....+. .+...+..+...|+|+   +|..+-..|......+-...+
T Consensus        89 ~~~~~~~~~~~y~~l~~~yp~s~~~~rl~L~~~~g~~F~~~~~~yl~~~l~KgvPs---lF~~lk~Ly~d~~K~~~i~~l  165 (517)
T PF12569_consen   89 SDEDVEKLLELYDELAEKYPRSDAPRRLPLDFLEGDEFKERLDEYLRPQLRKGVPS---LFSNLKPLYKDPEKAAIIESL  165 (517)
T ss_pred             ccccHHHHHHHHHHHHHhCccccchhHhhcccCCHHHHHHHHHHHHHHHHhcCCch---HHHHHHHHHcChhHHHHHHHH
Confidence              2456667777777665555444433333333222232 3555666677777554   455555555544444444555


Q ss_pred             HHHHhhc----C----------CCCCcc--hHHHHHHHHHhcCCHHHHHHHHhcC-CCCcc-HhHHHHHHHHHHhcCChh
Q 039362          321 FKSLGKR----G----------MVPKSE--HYACMVDALSRAGQVTEAYEFICQM-PLEPT-ASMLGSLLTGCMNHGKLD  382 (440)
Q Consensus       321 ~~~~~~~----~----------~~~~~~--~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p~-~~~~~~l~~~~~~~g~~~  382 (440)
                      +......    +          -.|+..  ++..+.+.|...|++++|++++++. ...|+ +..|..-++.+-+.|+++
T Consensus       166 ~~~~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~htPt~~ely~~KarilKh~G~~~  245 (517)
T PF12569_consen  166 VEEYVNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHYDYLGDYEKALEYIDKAIEHTPTLVELYMTKARILKHAGDLK  245 (517)
T ss_pred             HHHHHHhhcccCCCCCccccccCCchHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHCCCHH
Confidence            5544322    1          123332  3456778888999999999999987 66776 577888888999999999


Q ss_pred             HHHHHHHHHHhcCCCCCchHHHHHHHHHhccChHHHHHHHHHHHhcCC
Q 039362          383 LAEIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEARTTREAMETRGV  430 (440)
Q Consensus       383 ~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  430 (440)
                      +|.+.++.++.+++.|...-+..+..+.++|+.++|.+++....+.+.
T Consensus       246 ~Aa~~~~~Ar~LD~~DRyiNsK~aKy~LRa~~~e~A~~~~~~Ftr~~~  293 (517)
T PF12569_consen  246 EAAEAMDEARELDLADRYINSKCAKYLLRAGRIEEAEKTASLFTREDV  293 (517)
T ss_pred             HHHHHHHHHHhCChhhHHHHHHHHHHHHHCCCHHHHHHHHHhhcCCCC
Confidence            999999999999999988888889999999999999999988877665

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 [], [].

>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]

Probab=99.39  E-value=5e-09  Score=93.02  Aligned_cols=395  Identities=14%  Similarity=0.091  Sum_probs=264.2

Q ss_pred             ChHHHHHHHHHHHccCChhhHHHHHHHHHHcCCCCCcchHHHHHHHhhchhcHHHHHHHHHHHHHcCCCCcHHHHHHHHH
Q 039362           27 RIFYWNTVIRGYSKSKNPNKSISLFVKMLRAGVSPDHLTYPFLAKASGRLAKRELAVAVHAQIAKTGYESDLFISNSLIH  106 (440)
Q Consensus        27 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  106 (440)
                      ....|..++.. ...+++...++..+...+. .+-...|.....-.+...|+.++|..........++. +...|..+.-
T Consensus         7 E~~lF~~~lk~-yE~kQYkkgLK~~~~iL~k-~~eHgeslAmkGL~L~~lg~~~ea~~~vr~glr~d~~-S~vCwHv~gl   83 (700)
T KOG1156|consen    7 ENALFRRALKC-YETKQYKKGLKLIKQILKK-FPEHGESLAMKGLTLNCLGKKEEAYELVRLGLRNDLK-SHVCWHVLGL   83 (700)
T ss_pred             HHHHHHHHHHH-HHHHHHHhHHHHHHHHHHh-CCccchhHHhccchhhcccchHHHHHHHHHHhccCcc-cchhHHHHHH
Confidence            33445555554 4567888888888887773 4445566666666677889999999988888776654 6778888888


Q ss_pred             HHHhcCCHHHHHHHhhCCCC---CchhhHHHHHHHHHhcCChHHHHHHHhhCCC---CchhhHHHHHHHHHhcCCHHHHH
Q 039362          107 MYGSCGDIVYAREVFDGMPT---KMSVSWNSMLDGYAKCGEMNMARQVFELMPE---RNVVSWSALIDGYVKCGDYKEAL  180 (440)
Q Consensus       107 ~~~~~g~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~  180 (440)
                      .+....++++|++.|.....   .|...|.-+.-.-.+.++++.....-....+   .....|..++.++.-.|++..|.
T Consensus        84 ~~R~dK~Y~eaiKcy~nAl~~~~dN~qilrDlslLQ~QmRd~~~~~~tr~~LLql~~~~ra~w~~~Avs~~L~g~y~~A~  163 (700)
T KOG1156|consen   84 LQRSDKKYDEAIKCYRNALKIEKDNLQILRDLSLLQIQMRDYEGYLETRNQLLQLRPSQRASWIGFAVAQHLLGEYKMAL  163 (700)
T ss_pred             HHhhhhhHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHH
Confidence            88888899999999987653   3556677666667777888877776666554   24457888888889999999999


Q ss_pred             HHHHHHHhcC-CCCCHHHHHHHH------HHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHH
Q 039362          181 VIFEEMRDVG-SKANEVTLVSVL------CACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVF  253 (440)
Q Consensus       181 ~~~~~~~~~~-~~~~~~~~~~l~------~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  253 (440)
                      .+++...+.. ..|+...+....      ......|.++.|.+.+......- ......-..-...+.+.+++++|..++
T Consensus       164 ~il~ef~~t~~~~~s~~~~e~se~~Ly~n~i~~E~g~~q~ale~L~~~e~~i-~Dkla~~e~ka~l~~kl~~lEeA~~~y  242 (700)
T KOG1156|consen  164 EILEEFEKTQNTSPSKEDYEHSELLLYQNQILIEAGSLQKALEHLLDNEKQI-VDKLAFEETKADLLMKLGQLEEAVKVY  242 (700)
T ss_pred             HHHHHHHHhhccCCCHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHhhhhHH-HHHHHHhhhHHHHHHHHhhHHhHHHHH
Confidence            9999987664 246655544322      23456778888887776654331 222223345567788999999999999


Q ss_pred             hhhhhcCCchhhHHHHHH-HHHhcCChHHHH-HHHHHHHHcCCCccHhhHHHH-HHHHHcCCChHHHHHHHHHHhhcCCC
Q 039362          254 HGVEKHQSDVLIWNAMIG-GLAMHGFVKESL-ELFTEMQIVGITPDEITFLGL-LSACAHGGLVMEAWYFFKSLGKRGMV  330 (440)
Q Consensus       254 ~~~~~~~~~~~~~~~l~~-~~~~~~~~~~a~-~~~~~m~~~~~~p~~~~~~~l-~~~~~~~~~~~~a~~~~~~~~~~~~~  330 (440)
                      ..+....||...|..... ++.+..+..++. .+|....+.  .|....-.-+ +.......-.+....++....+.|++
T Consensus       243 ~~Ll~rnPdn~~Yy~~l~~~lgk~~d~~~~lk~ly~~ls~~--y~r~e~p~Rlplsvl~~eel~~~vdkyL~~~l~Kg~p  320 (700)
T KOG1156|consen  243 RRLLERNPDNLDYYEGLEKALGKIKDMLEALKALYAILSEK--YPRHECPRRLPLSVLNGEELKEIVDKYLRPLLSKGVP  320 (700)
T ss_pred             HHHHhhCchhHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhc--CcccccchhccHHHhCcchhHHHHHHHHHHHhhcCCC
Confidence            999988888776665544 443333333444 666655443  2222111111 11111223344555677777777765


Q ss_pred             CCcchHHHHHHHHHhcCCHHH----HHHHHhcC-C------------CCccHhH--HHHHHHHHHhcCChhHHHHHHHHH
Q 039362          331 PKSEHYACMVDALSRAGQVTE----AYEFICQM-P------------LEPTASM--LGSLLTGCMNHGKLDLAEIVGKKL  391 (440)
Q Consensus       331 ~~~~~~~~l~~~~~~~~~~~~----a~~~~~~~-~------------~~p~~~~--~~~l~~~~~~~g~~~~a~~~~~~~  391 (440)
                      +   ++..+...|-.-...+-    +..+...+ +            -.|....  +..++..+-..|+++.|..+++.+
T Consensus       321 ~---vf~dl~SLyk~p~k~~~le~Lvt~y~~~L~~~~~f~~~D~~~~E~PttllWt~y~laqh~D~~g~~~~A~~yId~A  397 (700)
T KOG1156|consen  321 S---VFKDLRSLYKDPEKVAFLEKLVTSYQHSLSGTGMFNFLDDGKQEPPTTLLWTLYFLAQHYDKLGDYEVALEYIDLA  397 (700)
T ss_pred             c---hhhhhHHHHhchhHhHHHHHHHHHHHhhcccccCCCcccccccCCchHHHHHHHHHHHHHHHcccHHHHHHHHHHH
Confidence            4   33333333332222111    11222222 1            1455544  455677788999999999999999


Q ss_pred             HhcCCCCCchHHHHHHHHHhccChHHHHHHHHHHHhcCC
Q 039362          392 VELQPDHDGRYVGLSNVYAIFKRWDEARTTREAMETRGV  430 (440)
Q Consensus       392 ~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  430 (440)
                      ++..|.-...|..-+..+...|..++|...+++..+...
T Consensus       398 IdHTPTliEly~~KaRI~kH~G~l~eAa~~l~ea~elD~  436 (700)
T KOG1156|consen  398 IDHTPTLIELYLVKARIFKHAGLLDEAAAWLDEAQELDT  436 (700)
T ss_pred             hccCchHHHHHHHHHHHHHhcCChHHHHHHHHHHHhccc
Confidence            999999888999999999999999999999999887654

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.38  E-value=1.5e-08  Score=83.65  Aligned_cols=382  Identities=13%  Similarity=0.077  Sum_probs=229.2

Q ss_pred             HHHHHccCChhhHHHHHHHHHHcCCCCCcchHHHHHHHhhchhcHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhcCCH
Q 039362           35 IRGYSKSKNPNKSISLFVKMLRAGVSPDHLTYPFLAKASGRLAKRELAVAVHAQIAKTGYESDLFISNSLIHMYGSCGDI  114 (440)
Q Consensus        35 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  114 (440)
                      +.-+....++..|+.+++--...+-.-...+-.-+..++.+.|++++|...+..+.+.. .++......|.-++.-.|.+
T Consensus        29 Ledfls~rDytGAislLefk~~~~~EEE~~~~lWia~C~fhLgdY~~Al~~Y~~~~~~~-~~~~el~vnLAcc~FyLg~Y  107 (557)
T KOG3785|consen   29 LEDFLSNRDYTGAISLLEFKLNLDREEEDSLQLWIAHCYFHLGDYEEALNVYTFLMNKD-DAPAELGVNLACCKFYLGQY  107 (557)
T ss_pred             HHHHHhcccchhHHHHHHHhhccchhhhHHHHHHHHHHHHhhccHHHHHHHHHHHhccC-CCCcccchhHHHHHHHHHHH
Confidence            55677788999999999876543322222333445567789999999999999988754 55667777788788888999


Q ss_pred             HHHHHHhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHhhCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCC
Q 039362          115 VYAREVFDGMPTKMSVSWNSMLDGYAKCGEMNMARQVFELMPERNVVSWSALIDGYVKCGDYKEALVIFEEMRDVGSKAN  194 (440)
Q Consensus       115 ~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  194 (440)
                      .+|..+-.+..+ ++..-..|.....+.++-++-..+-+.+.+ ....--++.......-.+.+|+++|.+....  .|+
T Consensus       108 ~eA~~~~~ka~k-~pL~~RLlfhlahklndEk~~~~fh~~LqD-~~EdqLSLAsvhYmR~HYQeAIdvYkrvL~d--n~e  183 (557)
T KOG3785|consen  108 IEAKSIAEKAPK-TPLCIRLLFHLAHKLNDEKRILTFHSSLQD-TLEDQLSLASVHYMRMHYQEAIDVYKRVLQD--NPE  183 (557)
T ss_pred             HHHHHHHhhCCC-ChHHHHHHHHHHHHhCcHHHHHHHHHHHhh-hHHHHHhHHHHHHHHHHHHHHHHHHHHHHhc--Chh
Confidence            999999887754 333445556666677777766665555543 2233344555555566799999999998765  444


Q ss_pred             HHHHHH-HHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhc--CCHHH----------------HHHHHh-
Q 039362          195 EVTLVS-VLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKC--GAIKE----------------ALIVFH-  254 (440)
Q Consensus       195 ~~~~~~-l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--g~~~~----------------A~~~~~-  254 (440)
                      -...+. +.-+|.+..-++-+.++++-.++.- +.++...+..+....+.  |+..+                +..+.+ 
T Consensus       184 y~alNVy~ALCyyKlDYydvsqevl~vYL~q~-pdStiA~NLkacn~fRl~ngr~ae~E~k~ladN~~~~~~f~~~l~rH  262 (557)
T KOG3785|consen  184 YIALNVYMALCYYKLDYYDVSQEVLKVYLRQF-PDSTIAKNLKACNLFRLINGRTAEDEKKELADNIDQEYPFIEYLCRH  262 (557)
T ss_pred             hhhhHHHHHHHHHhcchhhhHHHHHHHHHHhC-CCcHHHHHHHHHHHhhhhccchhHHHHHHHHhcccccchhHHHHHHc
Confidence            444443 4446678888888888888777653 44444444443333321  22111                111111 


Q ss_pred             ----------------hhhhcCCchhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHH-----------
Q 039362          255 ----------------GVEKHQSDVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSA-----------  307 (440)
Q Consensus       255 ----------------~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~-----------  307 (440)
                                      .+.+.  -+..--.++-.|.+.++..+|..+.+++...  .|-......+..+           
T Consensus       263 NLVvFrngEgALqVLP~L~~~--IPEARlNL~iYyL~q~dVqeA~~L~Kdl~Pt--tP~EyilKgvv~aalGQe~gSreH  338 (557)
T KOG3785|consen  263 NLVVFRNGEGALQVLPSLMKH--IPEARLNLIIYYLNQNDVQEAISLCKDLDPT--TPYEYILKGVVFAALGQETGSREH  338 (557)
T ss_pred             CeEEEeCCccHHHhchHHHhh--ChHhhhhheeeecccccHHHHHHHHhhcCCC--ChHHHHHHHHHHHHhhhhcCcHHH
Confidence                            11100  1122234555677889999998888765421  3333333222222           


Q ss_pred             ------------------------------HHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHh
Q 039362          308 ------------------------------CAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFIC  357 (440)
Q Consensus       308 ------------------------------~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  357 (440)
                                                    +.-..++++.+.+++.+..--...|...+ .+.++++..|.+.+|.++|-
T Consensus       339 lKiAqqffqlVG~Sa~ecDTIpGRQsmAs~fFL~~qFddVl~YlnSi~sYF~NdD~Fn~-N~AQAk~atgny~eaEelf~  417 (557)
T KOG3785|consen  339 LKIAQQFFQLVGESALECDTIPGRQSMASYFFLSFQFDDVLTYLNSIESYFTNDDDFNL-NLAQAKLATGNYVEAEELFI  417 (557)
T ss_pred             HHHHHHHHHHhcccccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcchhhh-HHHHHHHHhcChHHHHHHHh
Confidence                                          11223445555555555443222222222 46777888888888888887


Q ss_pred             cC-CCC-ccHhHHHH-HHHHHHhcCChhHHHHHHHHHHhcC-CCCCc-hHHHHHHHHHhccChHHHHHHHHHHHhcCC
Q 039362          358 QM-PLE-PTASMLGS-LLTGCMNHGKLDLAEIVGKKLVELQ-PDHDG-RYVGLSNVYAIFKRWDEARTTREAMETRGV  430 (440)
Q Consensus       358 ~~-~~~-p~~~~~~~-l~~~~~~~g~~~~a~~~~~~~~~~~-~~~~~-~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  430 (440)
                      +. +.+ .|..+|.. |.++|.+.++++.|..+   +++.+ |.+.. .+...+..|.+.+.+=-|.+.|+.+....+
T Consensus       418 ~is~~~ikn~~~Y~s~LArCyi~nkkP~lAW~~---~lk~~t~~e~fsLLqlIAn~CYk~~eFyyaaKAFd~lE~lDP  492 (557)
T KOG3785|consen  418 RISGPEIKNKILYKSMLARCYIRNKKPQLAWDM---MLKTNTPSERFSLLQLIANDCYKANEFYYAAKAFDELEILDP  492 (557)
T ss_pred             hhcChhhhhhHHHHHHHHHHHHhcCCchHHHHH---HHhcCCchhHHHHHHHHHHHHHHHHHHHHHHHhhhHHHccCC
Confidence            77 222 24455544 55667788887766544   44444 33322 234556677788887777777777765543

>PF13041 PPR_2: PPR repeat family

Probab=99.38  E-value=1.2e-12  Score=78.65  Aligned_cols=50  Identities=32%  Similarity=0.638  Sum_probs=42.3

Q ss_pred             CChHHHHHHHHHHHccCChhhHHHHHHHHHHcCCCCCcchHHHHHHHhhc
Q 039362           26 PRIFYWNTVIRGYSKSKNPNKSISLFVKMLRAGVSPDHLTYPFLAKASGR   75 (440)
Q Consensus        26 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~   75 (440)
                      ||+.+||++|.+|++.|++++|.++|++|.+.|++||..||+.+|++|++
T Consensus         1 P~~~~yn~li~~~~~~~~~~~a~~l~~~M~~~g~~P~~~Ty~~li~~~~k   50 (50)
T PF13041_consen    1 PDVVTYNTLISGYCKAGKFEEALKLFKEMKKRGIKPDSYTYNILINGLCK   50 (50)
T ss_pred             CchHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHcC
Confidence            78888888888888888888888888888888888888888888888764

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

Probab=99.37  E-value=7.6e-10  Score=85.68  Aligned_cols=201  Identities=13%  Similarity=0.020  Sum_probs=146.8

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCC-chhhHHHHHHHHHhc
Q 039362          198 LVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQS-DVLIWNAMIGGLAMH  276 (440)
Q Consensus       198 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~  276 (440)
                      ..-+.-.|...|++..|..-+++.++.. |.+..++..+...|.+.|..+.|.+.|++..+..| +..+.|.....+|..
T Consensus        38 rlqLal~YL~~gd~~~A~~nlekAL~~D-Ps~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~p~~GdVLNNYG~FLC~q  116 (250)
T COG3063          38 RLQLALGYLQQGDYAQAKKNLEKALEHD-PSYYLAHLVRAHYYQKLGENDLADESYRKALSLAPNNGDVLNNYGAFLCAQ  116 (250)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcCCCccchhhhhhHHHHhC
Confidence            4445566777888888888888887776 66677777788888888888888888888777766 466777788888888


Q ss_pred             CChHHHHHHHHHHHHcCCCc-cHhhHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHH
Q 039362          277 GFVKESLELFTEMQIVGITP-DEITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEF  355 (440)
Q Consensus       277 ~~~~~a~~~~~~m~~~~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  355 (440)
                      |++++|...|++....-.-| -..||..+.-+..+.|+.+.|..+|++.++... -.......+.+...+.|++-.|..+
T Consensus       117 g~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~dp-~~~~~~l~~a~~~~~~~~y~~Ar~~  195 (250)
T COG3063         117 GRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELDP-QFPPALLELARLHYKAGDYAPARLY  195 (250)
T ss_pred             CChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhCc-CCChHHHHHHHHHHhcccchHHHHH
Confidence            88888888888877642222 234677777777788888888888888877531 1344566677777888888888888


Q ss_pred             HhcC--CCCccHhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCCc
Q 039362          356 ICQM--PLEPTASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDG  400 (440)
Q Consensus       356 ~~~~--~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~  400 (440)
                      ++..  ...++..++...++.-...|+.+.+-++=.++.+..|.+..
T Consensus       196 ~~~~~~~~~~~A~sL~L~iriak~~gd~~~a~~Y~~qL~r~fP~s~e  242 (250)
T COG3063         196 LERYQQRGGAQAESLLLGIRIAKRLGDRAAAQRYQAQLQRLFPYSEE  242 (250)
T ss_pred             HHHHHhcccccHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCcHH
Confidence            8776  33467777767777777788888887777777777776653

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.37  E-value=2.6e-10  Score=101.96  Aligned_cols=233  Identities=15%  Similarity=0.107  Sum_probs=176.5

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHhc-----CC-CCCHH-HHHHHHHHHHhcCChHHHHHHHHHHHHc-----C--C
Q 039362          161 VSWSALIDGYVKCGDYKEALVIFEEMRDV-----GS-KANEV-TLVSVLCACAHLGALDQGRMMLRYMIDK-----G--L  226 (440)
Q Consensus       161 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~~-~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~--~  226 (440)
                      .+...+...|...|+++.|..+++...+.     |. .|... ....+...|...+++++|..+|++++..     |  .
T Consensus       200 ~~~~~La~~y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i~e~~~G~~h  279 (508)
T KOG1840|consen  200 RTLRNLAEMYAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEEALTIREEVFGEDH  279 (508)
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHhcCCCC
Confidence            45566889999999999999999987654     21 23332 3334677888999999999999998653     2  1


Q ss_pred             CCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhc--------CCch-hhHHHHHHHHHhcCChHHHHHHHHHHHHc---CC
Q 039362          227 SLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKH--------QSDV-LIWNAMIGGLAMHGFVKESLELFTEMQIV---GI  294 (440)
Q Consensus       227 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--------~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~m~~~---~~  294 (440)
                      +.-..+++.|..+|.+.|++++|..+++++.+.        .|.+ ..++.++..+...+++++|..+++...+.   -.
T Consensus       280 ~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~i~~~~~  359 (508)
T KOG1840|consen  280 PAVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQKALKIYLDAP  359 (508)
T ss_pred             HHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhhc
Confidence            223456788889999999999999988887643        2222 24667778888999999999999876432   11


Q ss_pred             Ccc----HhhHHHHHHHHHcCCChHHHHHHHHHHhhc----CC--CC-CcchHHHHHHHHHhcCCHHHHHHHHhcC----
Q 039362          295 TPD----EITFLGLLSACAHGGLVMEAWYFFKSLGKR----GM--VP-KSEHYACMVDALSRAGQVTEAYEFICQM----  359 (440)
Q Consensus       295 ~p~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~--~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~----  359 (440)
                      .++    ..+++.|...|...|++++|.+++++++..    +.  .+ ....++.+...|.+.+++.+|.++|.+.    
T Consensus       360 g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~~~~~~i~  439 (508)
T KOG1840|consen  360 GEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQLFEEAKDIM  439 (508)
T ss_pred             cccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHHHHHHHHHHHH
Confidence            222    357899999999999999999999988765    11  11 2345778889999999999888888776    


Q ss_pred             ----CCCccH-hHHHHHHHHHHhcCChhHHHHHHHHHHh
Q 039362          360 ----PLEPTA-SMLGSLLTGCMNHGKLDLAEIVGKKLVE  393 (440)
Q Consensus       360 ----~~~p~~-~~~~~l~~~~~~~g~~~~a~~~~~~~~~  393 (440)
                          .-.|+. .+|..|+..|...|+++.|+++.+.+..
T Consensus       440 ~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~~  478 (508)
T KOG1840|consen  440 KLCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVLN  478 (508)
T ss_pred             HHhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHHH
Confidence                234444 6789999999999999999999998874

>PF13041 PPR_2: PPR repeat family

Probab=99.36  E-value=2.6e-12  Score=77.12  Aligned_cols=50  Identities=36%  Similarity=0.611  Sum_probs=43.9

Q ss_pred             CchhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHc
Q 039362          261 SDVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAH  310 (440)
Q Consensus       261 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~  310 (440)
                      ||..+||++|.+|++.|++++|.++|++|.+.|+.||..||+.++++|++
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            78888899999999999999999999999888889999999998888864

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

Probab=99.36  E-value=1.1e-09  Score=100.34  Aligned_cols=206  Identities=15%  Similarity=0.132  Sum_probs=137.6

Q ss_pred             CCCChHHHHHHHHHHHccCChhhHHHHHHHHHHcCCCCCcchHHHHHHHhhchhcHHHHHHHHHHHHHcCCCCcHHHHHH
Q 039362           24 SNPRIFYWNTVIRGYSKSKNPNKSISLFVKMLRAGVSPDHLTYPFLAKASGRLAKRELAVAVHAQIAKTGYESDLFISNS  103 (440)
Q Consensus        24 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  103 (440)
                      ..||.++|..+|..|+..|+.+.|- +|.-|.-...+.+...|+.++..+...++.+.+.           .|.+.+|+.
T Consensus        21 i~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpk-----------ep~aDtyt~   88 (1088)
T KOG4318|consen   21 ILPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPK-----------EPLADTYTN   88 (1088)
T ss_pred             CCCchhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCC-----------CCchhHHHH
Confidence            3788899999999999999999998 8888876666566666666666666666555444           455566666


Q ss_pred             HHHHHHhcCCHHH---HHHHhhCCCC---------------------C-chhhHHHHHHHHHhcCChHHHHHHH------
Q 039362          104 LIHMYGSCGDIVY---AREVFDGMPT---------------------K-MSVSWNSMLDGYAKCGEMNMARQVF------  152 (440)
Q Consensus       104 l~~~~~~~g~~~~---a~~~~~~~~~---------------------~-~~~~~~~l~~~~~~~~~~~~a~~~~------  152 (440)
                      |..+|...||+..   ..+.+..+..                     | ....-...+....-.|-++.+++++      
T Consensus        89 Ll~ayr~hGDli~fe~veqdLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~n~illlv~eglwaqllkll~~~Pvs  168 (1088)
T KOG4318|consen   89 LLKAYRIHGDLILFEVVEQDLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAENAILLLVLEGLWAQLLKLLAKVPVS  168 (1088)
T ss_pred             HHHHHHhccchHHHHHHHHHHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHHHHHHHHHHHHHHHHHHHHHhhCCcc
Confidence            6666666666433   2221111100                     0 0000011111112222233333222      


Q ss_pred             ---------------------------hhCCC-CchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHH
Q 039362          153 ---------------------------ELMPE-RNVVSWSALIDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCA  204 (440)
Q Consensus       153 ---------------------------~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  204 (440)
                                                 ....+ +++.+|..++.+-..+|+.+.|..++.+|.+.|++.+.+-|-.++-+
T Consensus       169 a~~~p~~vfLrqnv~~ntpvekLl~~cksl~e~~~s~~l~a~l~~alaag~~d~Ak~ll~emke~gfpir~HyFwpLl~g  248 (1088)
T KOG4318|consen  169 AWNAPFQVFLRQNVVDNTPVEKLLNMCKSLVEAPTSETLHAVLKRALAAGDVDGAKNLLYEMKEKGFPIRAHYFWPLLLG  248 (1088)
T ss_pred             cccchHHHHHHHhccCCchHHHHHHHHHHhhcCCChHHHHHHHHHHHhcCchhhHHHHHHHHHHcCCCcccccchhhhhc
Confidence                                       22222 67888999999999999999999999999999988888877776655


Q ss_pred             HHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcC
Q 039362          205 CAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCG  244 (440)
Q Consensus       205 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  244 (440)
                         .++...++.++.-|.+.|+.|+..|+...+..+.++|
T Consensus       249 ---~~~~q~~e~vlrgmqe~gv~p~seT~adyvip~l~N~  285 (1088)
T KOG4318|consen  249 ---INAAQVFEFVLRGMQEKGVQPGSETQADYVIPQLSNG  285 (1088)
T ss_pred             ---CccchHHHHHHHHHHHhcCCCCcchhHHHHHhhhcch
Confidence               7888889999999999999999998877666655543

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=99.35  E-value=1.7e-09  Score=93.96  Aligned_cols=96  Identities=16%  Similarity=0.176  Sum_probs=77.5

Q ss_pred             cCChhhHHHHhhhc---CCCChHHHHHHHHHHHccCChhhHHHHHHHHHHcCCCCC-cchHHHHHHHhhchhcHHHHHHH
Q 039362           10 LGNIDYSCKVLSHL---SNPRIFYWNTVIRGYSKSKNPNKSISLFVKMLRAGVSPD-HLTYPFLAKASGRLAKRELAVAV   85 (440)
Q Consensus        10 ~g~~~~A~~~~~~~---~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~   85 (440)
                      .|+++.|...|-..   .++|-+.|..-..+|+..|++++|++=-.+..+  +.|+ +..|.....++.-.|++++|+..
T Consensus        15 ~~d~~~ai~~~t~ai~l~p~nhvlySnrsaa~a~~~~~~~al~da~k~~~--l~p~w~kgy~r~Gaa~~~lg~~~eA~~a   92 (539)
T KOG0548|consen   15 SGDFETAIRLFTEAIMLSPTNHVLYSNRSAAYASLGSYEKALKDATKTRR--LNPDWAKGYSRKGAALFGLGDYEEAILA   92 (539)
T ss_pred             cccHHHHHHHHHHHHccCCCccchhcchHHHHHHHhhHHHHHHHHHHHHh--cCCchhhHHHHhHHHHHhcccHHHHHHH
Confidence            39999999999764   367777888888899999999999887777666  4566 45688899999999999999999


Q ss_pred             HHHHHHcCCCCcHHHHHHHHHHH
Q 039362           86 HAQIAKTGYESDLFISNSLIHMY  108 (440)
Q Consensus        86 ~~~~~~~~~~~~~~~~~~l~~~~  108 (440)
                      |.+-++..+. +...++.+..++
T Consensus        93 y~~GL~~d~~-n~~L~~gl~~a~  114 (539)
T KOG0548|consen   93 YSEGLEKDPS-NKQLKTGLAQAY  114 (539)
T ss_pred             HHHHhhcCCc-hHHHHHhHHHhh
Confidence            9998887543 677778887777

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=99.35  E-value=1.1e-09  Score=98.54  Aligned_cols=311  Identities=15%  Similarity=0.130  Sum_probs=182.7

Q ss_pred             HHHHhhchhcHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhcCCHHHHHHHhhCCCCCchhhHHHHHHHHHhcCChHHH
Q 039362           69 LAKASGRLAKRELAVAVHAQIAKTGYESDLFISNSLIHMYGSCGDIVYAREVFDGMPTKMSVSWNSMLDGYAKCGEMNMA  148 (440)
Q Consensus        69 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  148 (440)
                      .|+.|.+.|.+-.|.+....-..  ...|......+..++.+..-+++|-.+|+++..++.     .+.+|.+-.-+-+|
T Consensus       621 aiqlyika~~p~~a~~~a~n~~~--l~~de~il~~ia~alik~elydkagdlfeki~d~dk-----ale~fkkgdaf~ka  693 (1636)
T KOG3616|consen  621 AIQLYIKAGKPAKAARAALNDEE--LLADEEILEHIAAALIKGELYDKAGDLFEKIHDFDK-----ALECFKKGDAFGKA  693 (1636)
T ss_pred             HHHHHHHcCCchHHHHhhcCHHH--hhccHHHHHHHHHHHHhhHHHHhhhhHHHHhhCHHH-----HHHHHHcccHHHHH
Confidence            34455555555544443221111  223444444444555555555555555555543221     22222222233333


Q ss_pred             HHHHhhCCCCchh-hHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCC
Q 039362          149 RQVFELMPERNVV-SWSALIDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLS  227 (440)
Q Consensus       149 ~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  227 (440)
                      .++-+-.-...+. .-......+...|+++.|...|-+..         .....+.+......+.+|+.+++.+.+++  
T Consensus       694 ielarfafp~evv~lee~wg~hl~~~~q~daainhfiea~---------~~~kaieaai~akew~kai~ildniqdqk--  762 (1636)
T KOG3616|consen  694 IELARFAFPEEVVKLEEAWGDHLEQIGQLDAAINHFIEAN---------CLIKAIEAAIGAKEWKKAISILDNIQDQK--  762 (1636)
T ss_pred             HHHHHhhCcHHHhhHHHHHhHHHHHHHhHHHHHHHHHHhh---------hHHHHHHHHhhhhhhhhhHhHHHHhhhhc--
Confidence            3333222111111 11222344555666666666554432         22234556667778888888888887664  


Q ss_pred             CchhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCCchhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHH
Q 039362          228 LTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQSDVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSA  307 (440)
Q Consensus       228 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~  307 (440)
                      ....-|..+...|...|+++.|.++|.+..       .++-.|..|.+.|+|..|.++-.+..  |.......|..-..-
T Consensus       763 ~~s~yy~~iadhyan~~dfe~ae~lf~e~~-------~~~dai~my~k~~kw~da~kla~e~~--~~e~t~~~yiakaed  833 (1636)
T KOG3616|consen  763 TASGYYGEIADHYANKGDFEIAEELFTEAD-------LFKDAIDMYGKAGKWEDAFKLAEECH--GPEATISLYIAKAED  833 (1636)
T ss_pred             cccccchHHHHHhccchhHHHHHHHHHhcc-------hhHHHHHHHhccccHHHHHHHHHHhc--CchhHHHHHHHhHHh
Confidence            334456778888889999999988887654       45667788889999998888776644  223333445555555


Q ss_pred             HHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcCCCCccHhHHHHHHHHHHhcCChhHHHHH
Q 039362          308 CAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQMPLEPTASMLGSLLTGCMNHGKLDLAEIV  387 (440)
Q Consensus       308 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~  387 (440)
                      +-+.|++.+|+++|-.+..    |+     ..|..|-+.|..+..+++.++..-..-..|...+..-+-..|+...|...
T Consensus       834 ldehgkf~eaeqlyiti~~----p~-----~aiqmydk~~~~ddmirlv~k~h~d~l~dt~~~f~~e~e~~g~lkaae~~  904 (1636)
T KOG3616|consen  834 LDEHGKFAEAEQLYITIGE----PD-----KAIQMYDKHGLDDDMIRLVEKHHGDHLHDTHKHFAKELEAEGDLKAAEEH  904 (1636)
T ss_pred             HHhhcchhhhhheeEEccC----ch-----HHHHHHHhhCcchHHHHHHHHhChhhhhHHHHHHHHHHHhccChhHHHHH
Confidence            6677888888877654322    44     35677888888888888888763233345666777777788888888877


Q ss_pred             HHHHHhcCCCCCchHHHHHHHHHhccChHHHHHHHH
Q 039362          388 GKKLVELQPDHDGRYVGLSNVYAIFKRWDEARTTRE  423 (440)
Q Consensus       388 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  423 (440)
                      |-++-        -|.+...+|...+-|++|.++-+
T Consensus       905 flea~--------d~kaavnmyk~s~lw~dayriak  932 (1636)
T KOG3616|consen  905 FLEAG--------DFKAAVNMYKASELWEDAYRIAK  932 (1636)
T ss_pred             HHhhh--------hHHHHHHHhhhhhhHHHHHHHHh
Confidence            76542        35566677777777777766554

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

Probab=99.34  E-value=6.1e-08  Score=85.41  Aligned_cols=387  Identities=12%  Similarity=0.034  Sum_probs=232.0

Q ss_pred             HHHHHccCChhhHHHHHHHHHHcCCCCCcchHHHHHHHhhchhcHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhcCCH
Q 039362           35 IRGYSKSKNPNKSISLFVKMLRAGVSPDHLTYPFLAKASGRLAKRELAVAVHAQIAKTGYESDLFISNSLIHMYGSCGDI  114 (440)
Q Consensus        35 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  114 (440)
                      ++-+...|++++|.....++...+ +.|...+..-+-++.+.+.+++|+.+.+.-...  ..+...+..=+-+..+.+..
T Consensus        19 ln~~~~~~e~e~a~k~~~Kil~~~-pdd~~a~~cKvValIq~~ky~~ALk~ikk~~~~--~~~~~~~fEKAYc~Yrlnk~   95 (652)
T KOG2376|consen   19 LNRHGKNGEYEEAVKTANKILSIV-PDDEDAIRCKVVALIQLDKYEDALKLIKKNGAL--LVINSFFFEKAYCEYRLNKL   95 (652)
T ss_pred             HHHhccchHHHHHHHHHHHHHhcC-CCcHhhHhhhHhhhhhhhHHHHHHHHHHhcchh--hhcchhhHHHHHHHHHcccH
Confidence            456788899999999999998864 445566777777888999999998655432211  11111112223345678999


Q ss_pred             HHHHHHhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHhhCCCCchhhHHHHHHHHH-hcCCHHHHHHHHHHHHhcCCCC
Q 039362          115 VYAREVFDGMPTKMSVSWNSMLDGYAKCGEMNMARQVFELMPERNVVSWSALIDGYV-KCGDYKEALVIFEEMRDVGSKA  193 (440)
Q Consensus       115 ~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~-~~~~~~~a~~~~~~~~~~~~~~  193 (440)
                      ++|...++.....+..+...-...+.+.|++++|..+|+.+.+.+...+..-+.+-+ ..+.-..+. +   +......|
T Consensus        96 Dealk~~~~~~~~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~dd~d~~~r~nl~a~~a~l~~~-~---~q~v~~v~  171 (652)
T KOG2376|consen   96 DEALKTLKGLDRLDDKLLELRAQVLYRLERYDEALDIYQHLAKNNSDDQDEERRANLLAVAAALQVQ-L---LQSVPEVP  171 (652)
T ss_pred             HHHHHHHhcccccchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHhhhHH-H---HHhccCCC
Confidence            999999996666666677777888999999999999999997655544443333211 111111111 1   22222233


Q ss_pred             CHHHHH---HHHHHHHhcCChHHHHHHHHHHHHcCC-------CCch-------hhHHHHHHHHHhcCCHHHHHHHHhhh
Q 039362          194 NEVTLV---SVLCACAHLGALDQGRMMLRYMIDKGL-------SLTL-------PLQTSLIDMYAKCGAIKEALIVFHGV  256 (440)
Q Consensus       194 ~~~~~~---~l~~~~~~~~~~~~a~~~~~~~~~~~~-------~~~~-------~~~~~l~~~~~~~g~~~~A~~~~~~~  256 (440)
                       ..+|.   .....+...|++.+|+++++...+.+.       ..+.       .+-..+..++...|+.++|..+|..+
T Consensus       172 -e~syel~yN~Ac~~i~~gky~qA~elL~kA~~~~~e~l~~~d~~eEeie~el~~IrvQlayVlQ~~Gqt~ea~~iy~~~  250 (652)
T KOG2376|consen  172 -EDSYELLYNTACILIENGKYNQAIELLEKALRICREKLEDEDTNEEEIEEELNPIRVQLAYVLQLQGQTAEASSIYVDI  250 (652)
T ss_pred             -cchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHH
Confidence             22343   334456788999999999999833210       1111       12234566778899999999999988


Q ss_pred             hhcCC-chh----hHHHHHHHHHhcCC----------------hHHHHHHH-------------------------HHHH
Q 039362          257 EKHQS-DVL----IWNAMIGGLAMHGF----------------VKESLELF-------------------------TEMQ  290 (440)
Q Consensus       257 ~~~~~-~~~----~~~~l~~~~~~~~~----------------~~~a~~~~-------------------------~~m~  290 (440)
                      .+..| |..    .-|.++..-....-                .+.+...|                         ++..
T Consensus       251 i~~~~~D~~~~Av~~NNLva~~~d~~~~d~~~l~~k~~~~~~l~~~~l~~Ls~~qk~~i~~N~~lL~l~tnk~~q~r~~~  330 (652)
T KOG2376|consen  251 IKRNPADEPSLAVAVNNLVALSKDQNYFDGDLLKSKKSQVFKLAEFLLSKLSKKQKQAIYRNNALLALFTNKMDQVRELS  330 (652)
T ss_pred             HHhcCCCchHHHHHhcchhhhccccccCchHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHH
Confidence            76533 321    11222211000000                00000000                         0000


Q ss_pred             Hc--CCCccHhhHHHHHHHHHc--CCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHh--------c
Q 039362          291 IV--GITPDEITFLGLLSACAH--GGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFIC--------Q  358 (440)
Q Consensus       291 ~~--~~~p~~~~~~~l~~~~~~--~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~--------~  358 (440)
                      ..  +..|. ..+..++..+.+  ...+..+..++....+....-...+....++.....|+++.|.+++.        .
T Consensus       331 a~lp~~~p~-~~~~~ll~~~t~~~~~~~~ka~e~L~~~~~~~p~~s~~v~L~~aQl~is~gn~~~A~~il~~~~~~~~ss  409 (652)
T KOG2376|consen  331 ASLPGMSPE-SLFPILLQEATKVREKKHKKAIELLLQFADGHPEKSKVVLLLRAQLKISQGNPEVALEILSLFLESWKSS  409 (652)
T ss_pred             HhCCccCch-HHHHHHHHHHHHHHHHHHhhhHHHHHHHhccCCchhHHHHHHHHHHHHhcCCHHHHHHHHHHHhhhhhhh
Confidence            00  11222 233444443322  22466777777776664322234456667788889999999999998        4


Q ss_pred             C-CCCccHhHHHHHHHHHHhcCChhHHHHHHHHHHhcC----CCC---CchHHHHHHHHHhccChHHHHHHHHHHHhcCC
Q 039362          359 M-PLEPTASMLGSLLTGCMNHGKLDLAEIVGKKLVELQ----PDH---DGRYVGLSNVYAIFKRWDEARTTREAMETRGV  430 (440)
Q Consensus       359 ~-~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~----~~~---~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  430 (440)
                      . .+.-.+.+...+...+.+.++.+.|..++..++..-    +..   ...+..++..-.+.|+-++|..+++++++.+.
T Consensus       410 ~~~~~~~P~~V~aiv~l~~~~~~~~~a~~vl~~Ai~~~~~~~t~s~~l~~~~~~aa~f~lr~G~~~ea~s~leel~k~n~  489 (652)
T KOG2376|consen  410 ILEAKHLPGTVGAIVALYYKIKDNDSASAVLDSAIKWWRKQQTGSIALLSLMREAAEFKLRHGNEEEASSLLEELVKFNP  489 (652)
T ss_pred             hhhhccChhHHHHHHHHHHhccCCccHHHHHHHHHHHHHHhcccchHHHhHHHHHhHHHHhcCchHHHHHHHHHHHHhCC
Confidence            3 333344555666777778888888888888877632    222   22455556666778999999999999988543

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=99.32  E-value=1.7e-08  Score=91.57  Aligned_cols=371  Identities=11%  Similarity=0.018  Sum_probs=242.3

Q ss_pred             CChHHHHHHHHHHHccCChhhHHHHHHHHHHcCCCCCcchHHHHHHHhhchhcHHHHHHHHHHHHHcCCCC-cHHHHHHH
Q 039362           26 PRIFYWNTVIRGYSKSKNPNKSISLFVKMLRAGVSPDHLTYPFLAKASGRLAKRELAVAVHAQIAKTGYES-DLFISNSL  104 (440)
Q Consensus        26 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l  104 (440)
                      .+...|..|.-++.+.|+++.+.+.|++.... .-.....|..+...+...|.-..|..+++........| ++..+-..
T Consensus       321 nd~ai~d~Lt~al~~~g~f~~lae~fE~~~~~-~~~~~e~w~~~als~saag~~s~Av~ll~~~~~~~~~ps~~s~~Lma  399 (799)
T KOG4162|consen  321 NDAAIFDHLTFALSRCGQFEVLAEQFEQALPF-SFGEHERWYQLALSYSAAGSDSKAVNLLRESLKKSEQPSDISVLLMA  399 (799)
T ss_pred             chHHHHHHHHHHHHHHHHHHHHHHHHHHHhHh-hhhhHHHHHHHHHHHHHhccchHHHHHHHhhcccccCCCcchHHHHH
Confidence            46677888888888888999988888887653 23345567777777888888888888888776654333 33344333


Q ss_pred             HHHHHh-cCCHHHHHHHhhCCCC--------CchhhHHHHHHHHH-----------hcCChHHHHHHHhhCCC---Cchh
Q 039362          105 IHMYGS-CGDIVYAREVFDGMPT--------KMSVSWNSMLDGYA-----------KCGEMNMARQVFELMPE---RNVV  161 (440)
Q Consensus       105 ~~~~~~-~g~~~~a~~~~~~~~~--------~~~~~~~~l~~~~~-----------~~~~~~~a~~~~~~~~~---~~~~  161 (440)
                      -..|.+ .+..+++..+-.++.+        ..+..|..+.-+|.           +.....++.+.+++..+   .|+.
T Consensus       400 sklc~e~l~~~eegldYA~kai~~~~~~~~~l~~~~~l~lGi~y~~~A~~a~~~seR~~~h~kslqale~av~~d~~dp~  479 (799)
T KOG4162|consen  400 SKLCIERLKLVEEGLDYAQKAISLLGGQRSHLKPRGYLFLGIAYGFQARQANLKSERDALHKKSLQALEEAVQFDPTDPL  479 (799)
T ss_pred             HHHHHhchhhhhhHHHHHHHHHHHhhhhhhhhhhhHHHHHHHHHHhHhhcCCChHHHHHHHHHHHHHHHHHHhcCCCCch
Confidence            344433 3555555444433322        13344555544442           22224456666666643   2344


Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHc-CCCC------------
Q 039362          162 SWSALIDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDK-GLSL------------  228 (440)
Q Consensus       162 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~------------  228 (440)
                      +...+.--|+..++.+.|.+..++..+.+-.-+...+..+.-.+...+++.+|+.+.+..... +...            
T Consensus       480 ~if~lalq~A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALvlSa~kr~~~Al~vvd~al~E~~~N~~l~~~~~~i~~~  559 (799)
T KOG4162|consen  480 VIFYLALQYAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDVVDAALEEFGDNHVLMDGKIHIELT  559 (799)
T ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHhhhhhhhchhhhhhhhh
Confidence            444445567778889999999998888765777888888888888889999998888776543 2100            


Q ss_pred             ------chhhHHHHHHHHHh------c-----------------CCHHHHHHHHhhhh-----------------hc---
Q 039362          229 ------TLPLQTSLIDMYAK------C-----------------GAIKEALIVFHGVE-----------------KH---  259 (440)
Q Consensus       229 ------~~~~~~~l~~~~~~------~-----------------g~~~~A~~~~~~~~-----------------~~---  259 (440)
                            ...+...++..+-.      .                 ++..+|......+.                 ..   
T Consensus       560 ~~~~e~~l~t~~~~L~~we~~~~~q~~~~~g~~~~lk~~l~la~~q~~~a~s~sr~ls~l~a~~~~~~~se~~Lp~s~~~  639 (799)
T KOG4162|consen  560 FNDREEALDTCIHKLALWEAEYGVQQTLDEGKLLRLKAGLHLALSQPTDAISTSRYLSSLVASQLKSAGSELKLPSSTVL  639 (799)
T ss_pred             cccHHHHHHHHHHHHHHHHhhhhHhhhhhhhhhhhhhcccccCcccccccchhhHHHHHHHHhhhhhcccccccCccccc
Confidence                  01122222222210      0                 01111111111110                 00   


Q ss_pred             -CCch------hhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHhhcCCCC-
Q 039362          260 -QSDV------LIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVP-  331 (440)
Q Consensus       260 -~~~~------~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-  331 (440)
                       .|+.      ..|......+.+.++.++|...+.+..... +-....|......+...|.+.+|.+.|......+  | 
T Consensus       640 ~~~~~~~~~~~~lwllaa~~~~~~~~~~~a~~CL~Ea~~~~-~l~~~~~~~~G~~~~~~~~~~EA~~af~~Al~ld--P~  716 (799)
T KOG4162|consen  640 PGPDSLWYLLQKLWLLAADLFLLSGNDDEARSCLLEASKID-PLSASVYYLRGLLLEVKGQLEEAKEAFLVALALD--PD  716 (799)
T ss_pred             CCCCchHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHhcc-hhhHHHHHHhhHHHHHHHhhHHHHHHHHHHHhcC--CC
Confidence             1111      134455667778888888888888776542 4455667777777888899999999999888753  4 


Q ss_pred             CcchHHHHHHHHHhcCCHHHHHH--HHhcC-CCCc-cHhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCCc
Q 039362          332 KSEHYACMVDALSRAGQVTEAYE--FICQM-PLEP-TASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDG  400 (440)
Q Consensus       332 ~~~~~~~l~~~~~~~~~~~~a~~--~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~  400 (440)
                      ++.+..++...+.+.|+..-|..  ++..+ .+.| ++..|..+...+.+.|+.+.|.+.|..+.++.+.+|.
T Consensus       717 hv~s~~Ala~~lle~G~~~la~~~~~L~dalr~dp~n~eaW~~LG~v~k~~Gd~~~Aaecf~aa~qLe~S~PV  789 (799)
T KOG4162|consen  717 HVPSMTALAELLLELGSPRLAEKRSLLSDALRLDPLNHEAWYYLGEVFKKLGDSKQAAECFQAALQLEESNPV  789 (799)
T ss_pred             CcHHHHHHHHHHHHhCCcchHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHccchHHHHHHHHHHHhhccCCCc
Confidence            56678899999999998877777  88887 6677 5689999999999999999999999999999877764

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=99.29  E-value=1.8e-08  Score=82.81  Aligned_cols=300  Identities=14%  Similarity=0.075  Sum_probs=182.6

Q ss_pred             HHHHHHHHHhcCCHHHHHHHhhCCCCCchhhHHHHH---HHHHhcCChHHHHHHHhhCCCCchhhHHHH---HHHHHhcC
Q 039362          101 SNSLIHMYGSCGDIVYAREVFDGMPTKMSVSWNSML---DGYAKCGEMNMARQVFELMPERNVVSWSAL---IDGYVKCG  174 (440)
Q Consensus       101 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~---~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l---~~~~~~~~  174 (440)
                      .--+...+...|++..|+.-|....+-|+..|.++.   ..|...|+..-|+.-+.++.+..+..+.+-   ...+.++|
T Consensus        41 hlElGk~lla~~Q~sDALt~yHaAve~dp~~Y~aifrRaT~yLAmGksk~al~Dl~rVlelKpDF~~ARiQRg~vllK~G  120 (504)
T KOG0624|consen   41 HLELGKELLARGQLSDALTHYHAAVEGDPNNYQAIFRRATVYLAMGKSKAALQDLSRVLELKPDFMAARIQRGVVLLKQG  120 (504)
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHcCCchhHHHHHHHHHHHhhhcCCccchhhHHHHHhcCccHHHHHHHhchhhhhcc
Confidence            334444455555555555555555555554444442   234555555555555555443222222221   23455666


Q ss_pred             CHHHHHHHHHHHHhcCCCCC--H------------HHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHH
Q 039362          175 DYKEALVIFEEMRDVGSKAN--E------------VTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMY  240 (440)
Q Consensus       175 ~~~~a~~~~~~~~~~~~~~~--~------------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  240 (440)
                      ++++|..-|+..++....-.  .            ......+..+...|+...|+.....+++.. +.+...+..-..+|
T Consensus       121 ele~A~~DF~~vl~~~~s~~~~~eaqskl~~~~e~~~l~~ql~s~~~~GD~~~ai~~i~~llEi~-~Wda~l~~~Rakc~  199 (504)
T KOG0624|consen  121 ELEQAEADFDQVLQHEPSNGLVLEAQSKLALIQEHWVLVQQLKSASGSGDCQNAIEMITHLLEIQ-PWDASLRQARAKCY  199 (504)
T ss_pred             cHHHHHHHHHHHHhcCCCcchhHHHHHHHHhHHHHHHHHHHHHHHhcCCchhhHHHHHHHHHhcC-cchhHHHHHHHHHH
Confidence            66666666666655421100  0            011223334455677777887777777765 66777777777888


Q ss_pred             HhcCCHHHHHHHHhhhhhcCC-chhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHH----H---HH------H
Q 039362          241 AKCGAIKEALIVFHGVEKHQS-DVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFL----G---LL------S  306 (440)
Q Consensus       241 ~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~----~---l~------~  306 (440)
                      ...|++..|+.-++.+.+... +...+-.+-..+...|+.+.++...++..+.  .||.....    .   +.      .
T Consensus       200 i~~~e~k~AI~Dlk~askLs~DnTe~~ykis~L~Y~vgd~~~sL~~iRECLKl--dpdHK~Cf~~YKklkKv~K~les~e  277 (504)
T KOG0624|consen  200 IAEGEPKKAIHDLKQASKLSQDNTEGHYKISQLLYTVGDAENSLKEIRECLKL--DPDHKLCFPFYKKLKKVVKSLESAE  277 (504)
T ss_pred             HhcCcHHHHHHHHHHHHhccccchHHHHHHHHHHHhhhhHHHHHHHHHHHHcc--CcchhhHHHHHHHHHHHHHHHHHHH
Confidence            888888888777777665533 4555556666677777777777777776653  45543211    1   11      1


Q ss_pred             HHHcCCChHHHHHHHHHHhhcCCCCC---cchHHHHHHHHHhcCCHHHHHHHHhcC-CCCcc-HhHHHHHHHHHHhcCCh
Q 039362          307 ACAHGGLVMEAWYFFKSLGKRGMVPK---SEHYACMVDALSRAGQVTEAYEFICQM-PLEPT-ASMLGSLLTGCMNHGKL  381 (440)
Q Consensus       307 ~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p~-~~~~~~l~~~~~~~g~~  381 (440)
                      .....++|.++.+-.+...+......   ...+..+-.++...|++.+|++...+. .+.|+ +.++..-..+|.-...+
T Consensus       278 ~~ie~~~~t~cle~ge~vlk~ep~~~~ir~~~~r~~c~C~~~d~~~~eAiqqC~evL~~d~~dv~~l~dRAeA~l~dE~Y  357 (504)
T KOG0624|consen  278 QAIEEKHWTECLEAGEKVLKNEPEETMIRYNGFRVLCTCYREDEQFGEAIQQCKEVLDIDPDDVQVLCDRAEAYLGDEMY  357 (504)
T ss_pred             HHHhhhhHHHHHHHHHHHHhcCCcccceeeeeeheeeecccccCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhhHHH
Confidence            12345677777777777777532211   223445666777888999999888887 66775 67888888888888899


Q ss_pred             hHHHHHHHHHHhcCCCCCchHH
Q 039362          382 DLAEIVGKKLVELQPDHDGRYV  403 (440)
Q Consensus       382 ~~a~~~~~~~~~~~~~~~~~~~  403 (440)
                      +.|+.-|+++.+.++++..+-.
T Consensus       358 D~AI~dye~A~e~n~sn~~~re  379 (504)
T KOG0624|consen  358 DDAIHDYEKALELNESNTRARE  379 (504)
T ss_pred             HHHHHHHHHHHhcCcccHHHHH
Confidence            9999999999999888765433

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

Probab=99.29  E-value=4.1e-09  Score=81.75  Aligned_cols=193  Identities=15%  Similarity=0.105  Sum_probs=128.3

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHh
Q 039362          163 WSALIDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAK  242 (440)
Q Consensus       163 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  242 (440)
                      ...+.-.|...|+...|..-+++.++.. +.+..++..+...|.+.|..+.|.+.|++.++.. +.+..+.|.....+|.
T Consensus        38 rlqLal~YL~~gd~~~A~~nlekAL~~D-Ps~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~-p~~GdVLNNYG~FLC~  115 (250)
T COG3063          38 RLQLALGYLQQGDYAQAKKNLEKALEHD-PSYYLAHLVRAHYYQKLGENDLADESYRKALSLA-PNNGDVLNNYGAFLCA  115 (250)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcC-CCccchhhhhhHHHHh
Confidence            4445566777777777777777777663 3345566666677777777777777777777665 5566677777777777


Q ss_pred             cCCHHHHHHHHhhhhhc---CCchhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHH
Q 039362          243 CGAIKEALIVFHGVEKH---QSDVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWY  319 (440)
Q Consensus       243 ~g~~~~A~~~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~  319 (440)
                      .|++++|...|++....   .....+|..+.-+..+.|+++.|...|++..+.. +-...+...+.....+.|++..|..
T Consensus       116 qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~d-p~~~~~~l~~a~~~~~~~~y~~Ar~  194 (250)
T COG3063         116 QGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELD-PQFPPALLELARLHYKAGDYAPARL  194 (250)
T ss_pred             CCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhC-cCCChHHHHHHHHHHhcccchHHHH
Confidence            77777777777776653   1134566666666777777777777777776653 3334456666666677777777777


Q ss_pred             HHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcC
Q 039362          320 FFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQM  359 (440)
Q Consensus       320 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  359 (440)
                      +++.....+. ++..+....|+.-...|+.+.+.++=..+
T Consensus       195 ~~~~~~~~~~-~~A~sL~L~iriak~~gd~~~a~~Y~~qL  233 (250)
T COG3063         195 YLERYQQRGG-AQAESLLLGIRIAKRLGDRAAAQRYQAQL  233 (250)
T ss_pred             HHHHHHhccc-ccHHHHHHHHHHHHHhccHHHHHHHHHHH
Confidence            7777666543 66666666666666777766665554444

>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=99.29  E-value=1.1e-10  Score=98.52  Aligned_cols=250  Identities=15%  Similarity=0.162  Sum_probs=152.8

Q ss_pred             HHHHhcCChHHHHHHHhhCCC----CchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChH
Q 039362          137 DGYAKCGEMNMARQVFELMPE----RNVVSWSALIDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALD  212 (440)
Q Consensus       137 ~~~~~~~~~~~a~~~~~~~~~----~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  212 (440)
                      +-+.-.|++..++.-.+ ...    .+......+.+++...|+++.++.   ++.... .|.......+...+...++-+
T Consensus         9 rn~fy~G~Y~~~i~e~~-~~~~~~~~~~e~~~~~~Rs~iAlg~~~~vl~---ei~~~~-~~~l~av~~la~y~~~~~~~e   83 (290)
T PF04733_consen    9 RNQFYLGNYQQCINEAS-LKSFSPENKLERDFYQYRSYIALGQYDSVLS---EIKKSS-SPELQAVRLLAEYLSSPSDKE   83 (290)
T ss_dssp             HHHHCTT-HHHHCHHHH-CHTSTCHHHHHHHHHHHHHHHHTT-HHHHHH---HS-TTS-SCCCHHHHHHHHHHCTSTTHH
T ss_pred             HHHHHhhhHHHHHHHhh-ccCCCchhHHHHHHHHHHHHHHcCChhHHHH---HhccCC-ChhHHHHHHHHHHHhCccchH
Confidence            34455688888876554 211    123345556788888888776543   333332 566666655555554434445


Q ss_pred             HHHHHHHHHHHcCCC-CchhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCCchhhHHHHHHHHHhcCChHHHHHHHHHHHH
Q 039362          213 QGRMMLRYMIDKGLS-LTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQSDVLIWNAMIGGLAMHGFVKESLELFTEMQI  291 (440)
Q Consensus       213 ~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~  291 (440)
                      .+..-++........ .+..........+...|++++|++++...    .+.......+..|.+.++++.|.+.++.|.+
T Consensus        84 ~~l~~l~~~~~~~~~~~~~~~~~~~A~i~~~~~~~~~AL~~l~~~----~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~  159 (290)
T PF04733_consen   84 SALEELKELLADQAGESNEIVQLLAATILFHEGDYEEALKLLHKG----GSLELLALAVQILLKMNRPDLAEKELKNMQQ  159 (290)
T ss_dssp             CHHHHHHHCCCTS---CHHHHHHHHHHHHCCCCHHHHHHCCCTTT----TCHHHHHHHHHHHHHTT-HHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHhccccccHHHHHHHHHHHHHcCCHHHHHHHHHcc----CcccHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            555544444333322 23333333445566778888888887764    3455666677888888888888888888876


Q ss_pred             cCCCccHhhHHHHHHHHHc----CCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcC-CCCc-cH
Q 039362          292 VGITPDEITFLGLLSACAH----GGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQM-PLEP-TA  365 (440)
Q Consensus       292 ~~~~p~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~  365 (440)
                      .  ..| .+...+..++..    .+.+.+|..+|+++.+. +.++..+.+.+..+....|++++|.+++++. ...| ++
T Consensus       160 ~--~eD-~~l~qLa~awv~l~~g~e~~~~A~y~f~El~~~-~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~~~~~  235 (290)
T PF04733_consen  160 I--DED-SILTQLAEAWVNLATGGEKYQDAFYIFEELSDK-FGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKDPNDP  235 (290)
T ss_dssp             C--SCC-HHHHHHHHHHHHHHHTTTCCCHHHHHHHHHHCC-S--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC-CCHH
T ss_pred             c--CCc-HHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhc-cCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhccCCH
Confidence            4  233 344445444432    34688888888887664 4567777788888888888888888888876 3333 55


Q ss_pred             hHHHHHHHHHHhcCCh-hHHHHHHHHHHhcCCCCC
Q 039362          366 SMLGSLLTGCMNHGKL-DLAEIVGKKLVELQPDHD  399 (440)
Q Consensus       366 ~~~~~l~~~~~~~g~~-~~a~~~~~~~~~~~~~~~  399 (440)
                      .++..++.+....|+. +.+.+++.++....|.++
T Consensus       236 d~LaNliv~~~~~gk~~~~~~~~l~qL~~~~p~h~  270 (290)
T PF04733_consen  236 DTLANLIVCSLHLGKPTEAAERYLSQLKQSNPNHP  270 (290)
T ss_dssp             HHHHHHHHHHHHTT-TCHHHHHHHHHCHHHTTTSH
T ss_pred             HHHHHHHHHHHHhCCChhHHHHHHHHHHHhCCCCh
Confidence            6777777777777777 667778888888877765

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.

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

Probab=99.29  E-value=2.9e-10  Score=99.42  Aligned_cols=222  Identities=10%  Similarity=0.025  Sum_probs=180.6

Q ss_pred             HHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCC-chhhHHHHHHHHHhcCChHHH
Q 039362          204 ACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQS-DVLIWNAMIGGLAMHGFVKES  282 (440)
Q Consensus       204 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a  282 (440)
                      -+.+.|++.+|.-.|+..++.+ |.+...|..|.......++-..|+..+++..+.+| |......|...|...|.-..|
T Consensus       294 ~lm~nG~L~~A~LafEAAVkqd-P~haeAW~~LG~~qaENE~E~~ai~AL~rcl~LdP~NleaLmaLAVSytNeg~q~~A  372 (579)
T KOG1125|consen  294 NLMKNGDLSEAALAFEAAVKQD-PQHAEAWQKLGITQAENENEQNAISALRRCLELDPTNLEALMALAVSYTNEGLQNQA  372 (579)
T ss_pred             HHHhcCCchHHHHHHHHHHhhC-hHHHHHHHHhhhHhhhccchHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhHHHH
Confidence            3468899999999999999887 88999999999999999999999999999998888 577888999999999999999


Q ss_pred             HHHHHHHHHcCCC-----c---cHhhHHHHHHHHHcCCChHHHHHHHHHHhhc-CCCCCcchHHHHHHHHHhcCCHHHHH
Q 039362          283 LELFTEMQIVGIT-----P---DEITFLGLLSACAHGGLVMEAWYFFKSLGKR-GMVPKSEHYACMVDALSRAGQVTEAY  353 (440)
Q Consensus       283 ~~~~~~m~~~~~~-----p---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~  353 (440)
                      ...|+.......+     +   +...-..  ..+.....+....++|-++... +..+|..+...|.-.|--.|++++|.
T Consensus       373 l~~L~~Wi~~~p~y~~l~~a~~~~~~~~~--~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdrai  450 (579)
T KOG1125|consen  373 LKMLDKWIRNKPKYVHLVSAGENEDFENT--KSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDRAV  450 (579)
T ss_pred             HHHHHHHHHhCccchhccccCccccccCC--cCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHHHH
Confidence            9999998654311     0   0000000  1111222334444555555444 55578889999999999999999999


Q ss_pred             HHHhcC-CCCcc-HhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCCchHHHHHHHHHhccChHHHHHHHHHHHhc
Q 039362          354 EFICQM-PLEPT-ASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEARTTREAMETR  428 (440)
Q Consensus       354 ~~~~~~-~~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  428 (440)
                      +.|+.+ .++|+ ..+||.|...++...+.++|+..|.+++++.|.-..+...|+..|...|.+++|.+.|=+.+..
T Consensus       451 Dcf~~AL~v~Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALqLqP~yVR~RyNlgIS~mNlG~ykEA~~hlL~AL~m  527 (579)
T KOG1125|consen  451 DCFEAALQVKPNDYLLWNRLGATLANGNRSEEAISAYNRALQLQPGYVRVRYNLGISCMNLGAYKEAVKHLLEALSM  527 (579)
T ss_pred             HHHHHHHhcCCchHHHHHHhhHHhcCCcccHHHHHHHHHHHhcCCCeeeeehhhhhhhhhhhhHHHHHHHHHHHHHh
Confidence            999998 77885 4789999999999999999999999999999999999999999999999999999998776654

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=99.28  E-value=7.3e-09  Score=85.02  Aligned_cols=295  Identities=14%  Similarity=0.088  Sum_probs=224.9

Q ss_pred             HHHHHHHHHhcCChHHHHHHHhhCCCCchhhHHHH---HHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHH-HHHHHHHh
Q 039362          132 WNSMLDGYAKCGEMNMARQVFELMPERNVVSWSAL---IDGYVKCGDYKEALVIFEEMRDVGSKANEVTLV-SVLCACAH  207 (440)
Q Consensus       132 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l---~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-~l~~~~~~  207 (440)
                      .--+.+.+...|++.+|+.-|....+-|+..|.++   ...|...|+...|+.-+.+.++.  +||-..-. .-...+.+
T Consensus        41 hlElGk~lla~~Q~sDALt~yHaAve~dp~~Y~aifrRaT~yLAmGksk~al~Dl~rVlel--KpDF~~ARiQRg~vllK  118 (504)
T KOG0624|consen   41 HLELGKELLARGQLSDALTHYHAAVEGDPNNYQAIFRRATVYLAMGKSKAALQDLSRVLEL--KPDFMAARIQRGVVLLK  118 (504)
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHcCCchhHHHHHHHHHHHhhhcCCccchhhHHHHHhc--CccHHHHHHHhchhhhh
Confidence            33466778888999999999999998777766655   45788999999999999988876  77754332 22345679


Q ss_pred             cCChHHHHHHHHHHHHcCCCCc--hhh------------HHHHHHHHHhcCCHHHHHHHHhhhhhcCC-chhhHHHHHHH
Q 039362          208 LGALDQGRMMLRYMIDKGLSLT--LPL------------QTSLIDMYAKCGAIKEALIVFHGVEKHQS-DVLIWNAMIGG  272 (440)
Q Consensus       208 ~~~~~~a~~~~~~~~~~~~~~~--~~~------------~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~  272 (440)
                      +|.++.|..-|+.+++......  ...            ....+..+.-.|+...|+.....+.+.+| |...+..-..+
T Consensus       119 ~Gele~A~~DF~~vl~~~~s~~~~~eaqskl~~~~e~~~l~~ql~s~~~~GD~~~ai~~i~~llEi~~Wda~l~~~Rakc  198 (504)
T KOG0624|consen  119 QGELEQAEADFDQVLQHEPSNGLVLEAQSKLALIQEHWVLVQQLKSASGSGDCQNAIEMITHLLEIQPWDASLRQARAKC  198 (504)
T ss_pred             cccHHHHHHHHHHHHhcCCCcchhHHHHHHHHhHHHHHHHHHHHHHHhcCCchhhHHHHHHHHHhcCcchhHHHHHHHHH
Confidence            9999999999999998753211  111            12334456678999999999999998877 77888888999


Q ss_pred             HHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCCcch----HHHH---------
Q 039362          273 LAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEH----YACM---------  339 (440)
Q Consensus       273 ~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~----~~~l---------  339 (440)
                      |...|++..|+.-++...+.. ..+..++.-+-..+...|+.+.++...++-++.  .||...    |..+         
T Consensus       199 ~i~~~e~k~AI~Dlk~askLs-~DnTe~~ykis~L~Y~vgd~~~sL~~iRECLKl--dpdHK~Cf~~YKklkKv~K~les  275 (504)
T KOG0624|consen  199 YIAEGEPKKAIHDLKQASKLS-QDNTEGHYKISQLLYTVGDAENSLKEIRECLKL--DPDHKLCFPFYKKLKKVVKSLES  275 (504)
T ss_pred             HHhcCcHHHHHHHHHHHHhcc-ccchHHHHHHHHHHHhhhhHHHHHHHHHHHHcc--CcchhhHHHHHHHHHHHHHHHHH
Confidence            999999999999888876654 445556666667777889999998888888774  465432    2221         


Q ss_pred             HHHHHhcCCHHHHHHHHhcC-CCCcc-----HhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCCchHHHHHHHHHhcc
Q 039362          340 VDALSRAGQVTEAYEFICQM-PLEPT-----ASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFK  413 (440)
Q Consensus       340 ~~~~~~~~~~~~a~~~~~~~-~~~p~-----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  413 (440)
                      +......++|.++++-.+.. ...|.     ...+..+-.++...|++.+|++...++++.+|++..++---+.+|.-..
T Consensus       276 ~e~~ie~~~~t~cle~ge~vlk~ep~~~~ir~~~~r~~c~C~~~d~~~~eAiqqC~evL~~d~~dv~~l~dRAeA~l~dE  355 (504)
T KOG0624|consen  276 AEQAIEEKHWTECLEAGEKVLKNEPEETMIRYNGFRVLCTCYREDEQFGEAIQQCKEVLDIDPDDVQVLCDRAEAYLGDE  355 (504)
T ss_pred             HHHHHhhhhHHHHHHHHHHHHhcCCcccceeeeeeheeeecccccCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhhH
Confidence            12234567788887777765 45554     2345566677788999999999999999999999999999999999999


Q ss_pred             ChHHHHHHHHHHHhcCCc
Q 039362          414 RWDEARTTREAMETRGVK  431 (440)
Q Consensus       414 ~~~~A~~~~~~~~~~~~~  431 (440)
                      .++.|+.-|+...+.+..
T Consensus       356 ~YD~AI~dye~A~e~n~s  373 (504)
T KOG0624|consen  356 MYDDAIHDYEKALELNES  373 (504)
T ss_pred             HHHHHHHHHHHHHhcCcc
Confidence            999999999998876543

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.25  E-value=6.2e-09  Score=83.79  Aligned_cols=79  Identities=15%  Similarity=0.026  Sum_probs=49.0

Q ss_pred             HHhcCCHHHHHHHHhcCC----CCccHhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCCchHHHHHHHHHhccChHHH
Q 039362          343 LSRAGQVTEAYEFICQMP----LEPTASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEA  418 (440)
Q Consensus       343 ~~~~~~~~~a~~~~~~~~----~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  418 (440)
                      +.+.|+++.|.+-+..|+    ...|+.|+..+.-.- ..+++.+..+-+.-+++.+|-++.++..++..|++..-++-|
T Consensus       251 eyq~~n~eAA~eaLtDmPPRaE~elDPvTLHN~Al~n-~~~~p~~g~~KLqFLL~~nPfP~ETFANlLllyCKNeyf~lA  329 (459)
T KOG4340|consen  251 EYQLRNYEAAQEALTDMPPRAEEELDPVTLHNQALMN-MDARPTEGFEKLQFLLQQNPFPPETFANLLLLYCKNEYFDLA  329 (459)
T ss_pred             hhhcccHHHHHHHhhcCCCcccccCCchhhhHHHHhc-ccCCccccHHHHHHHHhcCCCChHHHHHHHHHHhhhHHHhHH
Confidence            446677777777777772    234555555444322 234555556666666666776667777777777777777766


Q ss_pred             HHHH
Q 039362          419 RTTR  422 (440)
Q Consensus       419 ~~~~  422 (440)
                      ..++
T Consensus       330 ADvL  333 (459)
T KOG4340|consen  330 ADVL  333 (459)
T ss_pred             HHHH
Confidence            6655

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

Probab=99.24  E-value=7.1e-08  Score=86.02  Aligned_cols=260  Identities=13%  Similarity=-0.033  Sum_probs=151.3

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHh----cCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHh
Q 039362          167 IDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAH----LGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAK  242 (440)
Q Consensus       167 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  242 (440)
                      ...+...|++++|.+.+++..+.. +.+...+.. ...+..    .+..+.+.+.+.... ...+........+...+..
T Consensus        50 a~~~~~~g~~~~A~~~~~~~l~~~-P~~~~a~~~-~~~~~~~~~~~~~~~~~~~~l~~~~-~~~~~~~~~~~~~a~~~~~  126 (355)
T cd05804          50 ALSAWIAGDLPKALALLEQLLDDY-PRDLLALKL-HLGAFGLGDFSGMRDHVARVLPLWA-PENPDYWYLLGMLAFGLEE  126 (355)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHH-hHHHHHhcccccCchhHHHHHhccC-cCCCCcHHHHHHHHHHHHH
Confidence            345566788888888888877653 323333332 112222    344444444444311 1112233344456677788


Q ss_pred             cCCHHHHHHHHhhhhhcCCc-hhhHHHHHHHHHhcCChHHHHHHHHHHHHcCC-CccH--hhHHHHHHHHHcCCChHHHH
Q 039362          243 CGAIKEALIVFHGVEKHQSD-VLIWNAMIGGLAMHGFVKESLELFTEMQIVGI-TPDE--ITFLGLLSACAHGGLVMEAW  318 (440)
Q Consensus       243 ~g~~~~A~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~-~p~~--~~~~~l~~~~~~~~~~~~a~  318 (440)
                      .|++++|...+++..+..|+ ...+..+...+...|++++|...+++...... .|+.  ..+..+...+...|++++|.
T Consensus       127 ~G~~~~A~~~~~~al~~~p~~~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~  206 (355)
T cd05804         127 AGQYDRAEEAARRALELNPDDAWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAAL  206 (355)
T ss_pred             cCCHHHHHHHHHHHHhhCCCCcHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHH
Confidence            88888888888888777664 55667777788888888888888888765431 1222  23445677777888888888


Q ss_pred             HHHHHHhhcCC-CCCcchH-H--HHHHHHHhcCCHHHHHHH---HhcC-C-CC--ccHhHHHHHHHHHHhcCChhHHHHH
Q 039362          319 YFFKSLGKRGM-VPKSEHY-A--CMVDALSRAGQVTEAYEF---ICQM-P-LE--PTASMLGSLLTGCMNHGKLDLAEIV  387 (440)
Q Consensus       319 ~~~~~~~~~~~-~~~~~~~-~--~l~~~~~~~~~~~~a~~~---~~~~-~-~~--p~~~~~~~l~~~~~~~g~~~~a~~~  387 (440)
                      .+++++..... .+..... +  .++.-+...|....+.++   .... . ..  ...........++...|+.+.|..+
T Consensus       207 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~a~~~  286 (355)
T cd05804         207 AIYDTHIAPSAESDPALDLLDAASLLWRLELAGHVDVGDRWEDLADYAAWHFPDHGLAFNDLHAALALAGAGDKDALDKL  286 (355)
T ss_pred             HHHHHHhccccCCChHHHHhhHHHHHHHHHhcCCCChHHHHHHHHHHHHhhcCcccchHHHHHHHHHHhcCCCHHHHHHH
Confidence            88888754321 1111111 1  222233334432222222   1111 1 01  1112223466667789999999999


Q ss_pred             HHHHHhcCCC---------CCchHHHHHHHHHhccChHHHHHHHHHHHhcC
Q 039362          388 GKKLVELQPD---------HDGRYVGLSNVYAIFKRWDEARTTREAMETRG  429 (440)
Q Consensus       388 ~~~~~~~~~~---------~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  429 (440)
                      ++.+......         ........+.++...|++++|.+.+...+...
T Consensus       287 L~~l~~~~~~~~~~~~~~~~~~~~~l~A~~~~~~g~~~~A~~~L~~al~~a  337 (355)
T cd05804         287 LAALKGRASSADDNKQPARDVGLPLAEALYAFAEGNYATALELLGPVRDDL  337 (355)
T ss_pred             HHHHHHHHhccCchhhhHHhhhHHHHHHHHHHHcCCHHHHHHHHHHHHHHH
Confidence            9888764321         12234556667788999999999998887653

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.

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

Probab=99.14  E-value=8.7e-09  Score=87.07  Aligned_cols=244  Identities=12%  Similarity=0.026  Sum_probs=114.6

Q ss_pred             HHHccCChhhHHHHHHHHHHcCCCCCcchHHHHHHHhhchhcHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhcCCHHH
Q 039362           37 GYSKSKNPNKSISLFVKMLRAGVSPDHLTYPFLAKASGRLAKRELAVAVHAQIAKTGYESDLFISNSLIHMYGSCGDIVY  116 (440)
Q Consensus        37 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  116 (440)
                      -+.-.|++..++.-.+ .....-..+......+.+++...|+++.++   .++.... .|.......+...+...++-+.
T Consensus        10 n~fy~G~Y~~~i~e~~-~~~~~~~~~~e~~~~~~Rs~iAlg~~~~vl---~ei~~~~-~~~l~av~~la~y~~~~~~~e~   84 (290)
T PF04733_consen   10 NQFYLGNYQQCINEAS-LKSFSPENKLERDFYQYRSYIALGQYDSVL---SEIKKSS-SPELQAVRLLAEYLSSPSDKES   84 (290)
T ss_dssp             HHHCTT-HHHHCHHHH-CHTSTCHHHHHHHHHHHHHHHHTT-HHHHH---HHS-TTS-SCCCHHHHHHHHHHCTSTTHHC
T ss_pred             HHHHhhhHHHHHHHhh-ccCCCchhHHHHHHHHHHHHHHcCChhHHH---HHhccCC-ChhHHHHHHHHHHHhCccchHH
Confidence            3445666666665444 221111112223444556666666655433   2332222 4455555444444433344444


Q ss_pred             HHHHhhCCC-CC----chhhHHHHHHHHHhcCChHHHHHHHhhCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCC
Q 039362          117 AREVFDGMP-TK----MSVSWNSMLDGYAKCGEMNMARQVFELMPERNVVSWSALIDGYVKCGDYKEALVIFEEMRDVGS  191 (440)
Q Consensus       117 a~~~~~~~~-~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  191 (440)
                      +..-+++.. ++    +..........+...|++++|+++++..  .+.......+..|.+.++++.|.+.++.|.+.+ 
T Consensus        85 ~l~~l~~~~~~~~~~~~~~~~~~~A~i~~~~~~~~~AL~~l~~~--~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~~~-  161 (290)
T PF04733_consen   85 ALEELKELLADQAGESNEIVQLLAATILFHEGDYEEALKLLHKG--GSLELLALAVQILLKMNRPDLAEKELKNMQQID-  161 (290)
T ss_dssp             HHHHHHHCCCTS---CHHHHHHHHHHHHCCCCHHHHHHCCCTTT--TCHHHHHHHHHHHHHTT-HHHHHHHHHHHHCCS-
T ss_pred             HHHHHHHHHHhccccccHHHHHHHHHHHHHcCCHHHHHHHHHcc--CcccHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-
Confidence            544443322 21    1112222223445566666666666554  344555555666666666666666666665542 


Q ss_pred             CCCHHHHHHHHHHHHh----cCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCC-chhhH
Q 039362          192 KANEVTLVSVLCACAH----LGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQS-DVLIW  266 (440)
Q Consensus       192 ~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~  266 (440)
                        +..+...+..++..    ...+.+|..+|+++.+. .++++.+.+.+..++...|++++|..++.+.....| +..+.
T Consensus       162 --eD~~l~qLa~awv~l~~g~e~~~~A~y~f~El~~~-~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~~~~~d~L  238 (290)
T PF04733_consen  162 --EDSILTQLAEAWVNLATGGEKYQDAFYIFEELSDK-FGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKDPNDPDTL  238 (290)
T ss_dssp             --CCHHHHHHHHHHHHHHHTTTCCCHHHHHHHHHHCC-S--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC-CCHHHHH
T ss_pred             --CcHHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhc-cCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhccCCHHHH
Confidence              22333333333322    22466666666665443 245555556666666666666666666665554433 34444


Q ss_pred             HHHHHHHHhcCCh-HHHHHHHHHHHH
Q 039362          267 NAMIGGLAMHGFV-KESLELFTEMQI  291 (440)
Q Consensus       267 ~~l~~~~~~~~~~-~~a~~~~~~m~~  291 (440)
                      ..++......|+. +.+.+.+.++..
T Consensus       239 aNliv~~~~~gk~~~~~~~~l~qL~~  264 (290)
T PF04733_consen  239 ANLIVCSLHLGKPTEAAERYLSQLKQ  264 (290)
T ss_dssp             HHHHHHHHHTT-TCHHHHHHHHHCHH
T ss_pred             HHHHHHHHHhCCChhHHHHHHHHHHH
Confidence            4455554555554 444555555544

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.

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=99.13  E-value=1.6e-06  Score=79.81  Aligned_cols=226  Identities=17%  Similarity=0.151  Sum_probs=122.7

Q ss_pred             ccccccccCChhhHHHHhhhcCCCChHHHHHHHHHHHccCChhhHHHHHHHHHHc-C-------C-CCCcchHHHHHHHh
Q 039362            3 SFSALSYLGNIDYSCKVLSHLSNPRIFYWNTVIRGYSKSKNPNKSISLFVKMLRA-G-------V-SPDHLTYPFLAKAS   73 (440)
Q Consensus         3 ~~y~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~-------~-~~~~~~~~~l~~~~   73 (440)
                      ++|..-  |+.+.|.+-.+-+.+  ...|..|.+.|.+..+.+-|.-.+-.|... |       . .|+ .+=..+.-..
T Consensus       736 Sfyvti--G~MD~AfksI~~IkS--~~vW~nmA~McVkT~RLDVAkVClGhm~~aRgaRAlR~a~q~~~-e~eakvAvLA  810 (1416)
T KOG3617|consen  736 SFYVTI--GSMDAAFKSIQFIKS--DSVWDNMASMCVKTRRLDVAKVCLGHMKNARGARALRRAQQNGE-EDEAKVAVLA  810 (1416)
T ss_pred             eEEEEe--ccHHHHHHHHHHHhh--hHHHHHHHHHhhhhccccHHHHhhhhhhhhhhHHHHHHHHhCCc-chhhHHHHHH
Confidence            356666  888888776666543  467888888888888777777666665421 1       1 121 2222223333


Q ss_pred             hchhcHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhcCCHHHHHHHhhCCCCC-chhhHHHHHHHHHhcCChHHHHHHH
Q 039362           74 GRLAKRELAVAVHAQIAKTGYESDLFISNSLIHMYGSCGDIVYAREVFDGMPTK-MSVSWNSMLDGYAKCGEMNMARQVF  152 (440)
Q Consensus        74 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~  152 (440)
                      ...|.+++|+.+|.+....         ..|=..|-..|.+++|.++-+.-..- -..||......+...++.+.|++.|
T Consensus       811 ieLgMlEeA~~lYr~ckR~---------DLlNKlyQs~g~w~eA~eiAE~~DRiHLr~Tyy~yA~~Lear~Di~~Aleyy  881 (1416)
T KOG3617|consen  811 IELGMLEEALILYRQCKRY---------DLLNKLYQSQGMWSEAFEIAETKDRIHLRNTYYNYAKYLEARRDIEAALEYY  881 (1416)
T ss_pred             HHHhhHHHHHHHHHHHHHH---------HHHHHHHHhcccHHHHHHHHhhccceehhhhHHHHHHHHHhhccHHHHHHHH
Confidence            5667778888887776543         23334555677888887776543221 1235555666666677777777777


Q ss_pred             hhCCCC-----------------------chhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcC
Q 039362          153 ELMPER-----------------------NVVSWSALIDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLG  209 (440)
Q Consensus       153 ~~~~~~-----------------------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  209 (440)
                      ++...+                       |...|.-....+-..|+.+.|+.+|....+         |..+++..|-.|
T Consensus       882 EK~~~hafev~rmL~e~p~~~e~Yv~~~~d~~L~~WWgqYlES~GemdaAl~~Y~~A~D---------~fs~VrI~C~qG  952 (1416)
T KOG3617|consen  882 EKAGVHAFEVFRMLKEYPKQIEQYVRRKRDESLYSWWGQYLESVGEMDAALSFYSSAKD---------YFSMVRIKCIQG  952 (1416)
T ss_pred             HhcCChHHHHHHHHHhChHHHHHHHHhccchHHHHHHHHHHhcccchHHHHHHHHHhhh---------hhhheeeEeecc
Confidence            765432                       222233333333334444444444443321         223334444445


Q ss_pred             ChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHhhhh
Q 039362          210 ALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVE  257 (440)
Q Consensus       210 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  257 (440)
                      +.++|.++-++      ..|....-.+...|-..|++.+|..+|.+..
T Consensus       953 k~~kAa~iA~e------sgd~AAcYhlaR~YEn~g~v~~Av~FfTrAq  994 (1416)
T KOG3617|consen  953 KTDKAARIAEE------SGDKAACYHLARMYENDGDVVKAVKFFTRAQ  994 (1416)
T ss_pred             CchHHHHHHHh------cccHHHHHHHHHHhhhhHHHHHHHHHHHHHH
Confidence            55555444332      2233444455566666666666666655543

>PRK04841 transcriptional regulator MalT; Provisional

Probab=99.13  E-value=5.1e-07  Score=91.12  Aligned_cols=323  Identities=13%  Similarity=-0.010  Sum_probs=209.5

Q ss_pred             HHHhcCCHHHHHHHhhCCCC----CchhhHHHHHHHHHhcCChHHHHHHHhhCCC----C----c----hhhHHHHHHHH
Q 039362          107 MYGSCGDIVYAREVFDGMPT----KMSVSWNSMLDGYAKCGEMNMARQVFELMPE----R----N----VVSWSALIDGY  170 (440)
Q Consensus       107 ~~~~~g~~~~a~~~~~~~~~----~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~----~----~----~~~~~~l~~~~  170 (440)
                      .....|+++.+...++.+..    .+..........+...|+++++...+.....    .    +    ......+...+
T Consensus       383 ~l~~~g~~~~l~~~l~~lp~~~~~~~~~l~~~~a~~~~~~g~~~~a~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~a~~~  462 (903)
T PRK04841        383 SLFNQGELSLLEECLNALPWEVLLENPRLVLLQAWLAQSQHRYSEVNTLLARAEQELKDRNIELDGTLQAEFNALRAQVA  462 (903)
T ss_pred             HHHhcCChHHHHHHHHhCCHHHHhcCcchHHHHHHHHHHCCCHHHHHHHHHHHHHhccccCcccchhHHHHHHHHHHHHH
Confidence            44556777777777777642    1233333444555678899999888876532    1    1    11222334556


Q ss_pred             HhcCCHHHHHHHHHHHHhcCCCCCH----HHHHHHHHHHHhcCChHHHHHHHHHHHHcCC---CCc--hhhHHHHHHHHH
Q 039362          171 VKCGDYKEALVIFEEMRDVGSKANE----VTLVSVLCACAHLGALDQGRMMLRYMIDKGL---SLT--LPLQTSLIDMYA  241 (440)
Q Consensus       171 ~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~---~~~--~~~~~~l~~~~~  241 (440)
                      ...|++++|...+++....-...+.    .....+...+...|+++.|...+.+.....-   .+.  ......+...+.
T Consensus       463 ~~~g~~~~A~~~~~~al~~~~~~~~~~~~~a~~~lg~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~  542 (903)
T PRK04841        463 INDGDPEEAERLAELALAELPLTWYYSRIVATSVLGEVHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEILF  542 (903)
T ss_pred             HhCCCHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHH
Confidence            7889999999999987653111121    2344555667789999999999888764321   111  234456677888


Q ss_pred             hcCCHHHHHHHHhhhhhc-----CC----chhhHHHHHHHHHhcCChHHHHHHHHHHHHcC--CCc--cHhhHHHHHHHH
Q 039362          242 KCGAIKEALIVFHGVEKH-----QS----DVLIWNAMIGGLAMHGFVKESLELFTEMQIVG--ITP--DEITFLGLLSAC  308 (440)
Q Consensus       242 ~~g~~~~A~~~~~~~~~~-----~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~--~~p--~~~~~~~l~~~~  308 (440)
                      ..|+++.|...+++....     .+    ....+..+...+...|++++|...+.+.....  ..+  ....+..+....
T Consensus       543 ~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~  622 (903)
T PRK04841        543 AQGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKIS  622 (903)
T ss_pred             HCCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHH
Confidence            999999999998876543     11    12234455566777899999999998875431  112  223445566677


Q ss_pred             HcCCChHHHHHHHHHHhhcCCC-CCcchH-----HHHHHHHHhcCCHHHHHHHHhcCCC-C-ccH----hHHHHHHHHHH
Q 039362          309 AHGGLVMEAWYFFKSLGKRGMV-PKSEHY-----ACMVDALSRAGQVTEAYEFICQMPL-E-PTA----SMLGSLLTGCM  376 (440)
Q Consensus       309 ~~~~~~~~a~~~~~~~~~~~~~-~~~~~~-----~~l~~~~~~~~~~~~a~~~~~~~~~-~-p~~----~~~~~l~~~~~  376 (440)
                      ...|+.+.|...+..+...... .....+     ...+..+...|+.+.|.+++..... . ...    ..+..+..++.
T Consensus       623 ~~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~a~~~~  702 (903)
T PRK04841        623 LARGDLDNARRYLNRLENLLGNGRYHSDWIANADKVRLIYWQMTGDKEAAANWLRQAPKPEFANNHFLQGQWRNIARAQI  702 (903)
T ss_pred             HHcCCHHHHHHHHHHHHHHHhcccccHhHhhHHHHHHHHHHHHCCCHHHHHHHHHhcCCCCCccchhHHHHHHHHHHHHH
Confidence            7889999999999888653111 111111     1122445568999999999877621 1 111    12345677788


Q ss_pred             hcCChhHHHHHHHHHHhcCCC------CCchHHHHHHHHHhccChHHHHHHHHHHHhcC
Q 039362          377 NHGKLDLAEIVGKKLVELQPD------HDGRYVGLSNVYAIFKRWDEARTTREAMETRG  429 (440)
Q Consensus       377 ~~g~~~~a~~~~~~~~~~~~~------~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  429 (440)
                      ..|++++|...++++......      ...+...++.++.+.|+.++|...+.+..+..
T Consensus       703 ~~g~~~~A~~~l~~al~~~~~~g~~~~~a~~~~~la~a~~~~G~~~~A~~~L~~Al~la  761 (903)
T PRK04841        703 LLGQFDEAEIILEELNENARSLRLMSDLNRNLILLNQLYWQQGRKSEAQRVLLEALKLA  761 (903)
T ss_pred             HcCCHHHHHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHh
Confidence            899999999999999875311      12356778889999999999999999998754

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

Probab=99.12  E-value=1e-06  Score=78.58  Aligned_cols=198  Identities=12%  Similarity=-0.026  Sum_probs=106.7

Q ss_pred             hHHHHHHHHHHHccCChhhHHHHHHHHHHcCCCCCcch---HHHHHHHhhchhcHHHHHHHHHHHHHcCCCCcHHHHHHH
Q 039362           28 IFYWNTVIRGYSKSKNPNKSISLFVKMLRAGVSPDHLT---YPFLAKASGRLAKRELAVAVHAQIAKTGYESDLFISNSL  104 (440)
Q Consensus        28 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~---~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  104 (440)
                      ...|..+...+...|+++.+...+....+.. +++...   .......+...|++++|.+.+++..+..+. +...+.. 
T Consensus         6 ~~a~~~~a~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~e~~~~~a~~~~~~g~~~~A~~~~~~~l~~~P~-~~~a~~~-   82 (355)
T cd05804           6 ALGHAAAALLLLLGGERPAAAAKAAAAAQAL-AARATERERAHVEALSAWIAGDLPKALALLEQLLDDYPR-DLLALKL-   82 (355)
T ss_pred             HHHHHHHHHHHHhcCCcchHHHHHHHHHHHh-ccCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCC-cHHHHHH-
Confidence            4466677777777788888777776655432 222221   222233456678888888888888776433 3333331 


Q ss_pred             HHHHHh----cCCHHHHHHHhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHhhCCCCchhhHHHHHHHHHhcCCHHHHH
Q 039362          105 IHMYGS----CGDIVYAREVFDGMPTKMSVSWNSMLDGYAKCGEMNMARQVFELMPERNVVSWSALIDGYVKCGDYKEAL  180 (440)
Q Consensus       105 ~~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  180 (440)
                      ...+..    .+..+.+.+.+......++                            ........+...+...|++++|.
T Consensus        83 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~----------------------------~~~~~~~~~a~~~~~~G~~~~A~  134 (355)
T cd05804          83 HLGAFGLGDFSGMRDHVARVLPLWAPENP----------------------------DYWYLLGMLAFGLEEAGQYDRAE  134 (355)
T ss_pred             hHHHHHhcccccCchhHHHHHhccCcCCC----------------------------CcHHHHHHHHHHHHHcCCHHHHH
Confidence            112222    2333333333322111000                            11223334445666677777777


Q ss_pred             HHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCC-Cch--hhHHHHHHHHHhcCCHHHHHHHHhhhh
Q 039362          181 VIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLS-LTL--PLQTSLIDMYAKCGAIKEALIVFHGVE  257 (440)
Q Consensus       181 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~--~~~~~l~~~~~~~g~~~~A~~~~~~~~  257 (440)
                      ..+++..+.. +.+...+..+..++...|++++|...++...+.... ++.  ..+..+...+...|++++|..++++..
T Consensus       135 ~~~~~al~~~-p~~~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~~~  213 (355)
T cd05804         135 EAARRALELN-PDDAWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAALAIYDTHI  213 (355)
T ss_pred             HHHHHHHhhC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHHHHHHHHh
Confidence            7777766653 334455566666666777777777777766554311 111  223455666666677777766666654

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.

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=99.11  E-value=1.6e-07  Score=81.94  Aligned_cols=375  Identities=14%  Similarity=0.092  Sum_probs=214.3

Q ss_pred             HHHHHccCChhhHHHHHHHHHHcCCCCCcchHHHHHHHhhchhcHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhcCCH
Q 039362           35 IRGYSKSKNPNKSISLFVKMLRAGVSPDHLTYPFLAKASGRLAKRELAVAVHAQIAKTGYESDLFISNSLIHMYGSCGDI  114 (440)
Q Consensus        35 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  114 (440)
                      .++....|+++.|+.+|.+.+... ++|...|..-..+|++.|++++|.+=-.+.++..+. =+..|.....++.-.|++
T Consensus         9 gnaa~s~~d~~~ai~~~t~ai~l~-p~nhvlySnrsaa~a~~~~~~~al~da~k~~~l~p~-w~kgy~r~Gaa~~~lg~~   86 (539)
T KOG0548|consen    9 GNAAFSSGDFETAIRLFTEAIMLS-PTNHVLYSNRSAAYASLGSYEKALKDATKTRRLNPD-WAKGYSRKGAALFGLGDY   86 (539)
T ss_pred             HHhhcccccHHHHHHHHHHHHccC-CCccchhcchHHHHHHHhhHHHHHHHHHHHHhcCCc-hhhHHHHhHHHHHhcccH
Confidence            355678999999999999998864 457888999999999999999998877777665433 356788888899999999


Q ss_pred             HHHHHHhhCCCCC---chhhHHHHHHHHHhcCChHHH-HHHH------hhCCC-C------chhhHHHHHHHHHhc----
Q 039362          115 VYAREVFDGMPTK---MSVSWNSMLDGYAKCGEMNMA-RQVF------ELMPE-R------NVVSWSALIDGYVKC----  173 (440)
Q Consensus       115 ~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a-~~~~------~~~~~-~------~~~~~~~l~~~~~~~----  173 (440)
                      ++|+..|.+-.+.   +...++-+..++    ..+.+ -+.|      ..+.. |      ....|..++..+.+.    
T Consensus        87 ~eA~~ay~~GL~~d~~n~~L~~gl~~a~----~~~~~~~~~~~~p~~~~~l~~~p~t~~~~~~~~~~~~l~~~~~~p~~l  162 (539)
T KOG0548|consen   87 EEAILAYSEGLEKDPSNKQLKTGLAQAY----LEDYAADQLFTKPYFHEKLANLPLTNYSLSDPAYVKILEIIQKNPTSL  162 (539)
T ss_pred             HHHHHHHHHHhhcCCchHHHHHhHHHhh----hHHHHhhhhccCcHHHHHhhcChhhhhhhccHHHHHHHHHhhcCcHhh
Confidence            9999999987754   334555555555    11111 1111      00000 0      011222222222111    


Q ss_pred             ---CCHHHHHHHHHHHHhc--------C-------CCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHH-cCCCCchhhHH
Q 039362          174 ---GDYKEALVIFEEMRDV--------G-------SKANEVTLVSVLCACAHLGALDQGRMMLRYMID-KGLSLTLPLQT  234 (440)
Q Consensus       174 ---~~~~~a~~~~~~~~~~--------~-------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-~~~~~~~~~~~  234 (440)
                         .+.+...+..-.+...        +       ..|..           +.   ...........+ .....-..-..
T Consensus       163 ~~~l~d~r~m~a~~~l~~~~~~~~~~~~~~~~~~~~~p~~-----------~~---~~~~~~~~d~~ee~~~k~~a~~ek  228 (539)
T KOG0548|consen  163 KLYLNDPRLMKADGQLKGVDELLFYASGIEILASMAEPCK-----------QE---HNGFPIIEDNTEERRVKEKAHKEK  228 (539)
T ss_pred             hcccccHHHHHHHHHHhcCccccccccccccCCCCCCccc-----------cc---CCCCCccchhHHHHHHHHhhhHHH
Confidence               0011111111111000        0       01100           00   000000000000 00000011223


Q ss_pred             HHHHHHHhcCCHHHHHHHHhhhhhcCCchhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHH-------HHHHH
Q 039362          235 SLIDMYAKCGAIKEALIVFHGVEKHQSDVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFL-------GLLSA  307 (440)
Q Consensus       235 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~-------~l~~~  307 (440)
                      .+.....+..+++.|+..+........+..-++....+|...|.+..+........+.|.. ...-|+       .+..+
T Consensus       229 ~lgnaaykkk~f~~a~q~y~~a~el~~~it~~~n~aA~~~e~~~~~~c~~~c~~a~E~gre-~rad~klIak~~~r~g~a  307 (539)
T KOG0548|consen  229 ELGNAAYKKKDFETAIQHYAKALELATDITYLNNIAAVYLERGKYAECIELCEKAVEVGRE-LRADYKLIAKALARLGNA  307 (539)
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHhHhhhhHHHHHHHHHHHhccHHHHhhcchHHHHHHhHH-HHHHHHHHHHHHHHhhhh
Confidence            3444555555555565555555544433333444455555555555555555444444311 111111       12223


Q ss_pred             HHcCCChHHHHHHHHHHhhcCCCCCcch-------------------------HHHHHHHHHhcCCHHHHHHHHhcC-CC
Q 039362          308 CAHGGLVMEAWYFFKSLGKRGMVPKSEH-------------------------YACMVDALSRAGQVTEAYEFICQM-PL  361 (440)
Q Consensus       308 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~-------------------------~~~l~~~~~~~~~~~~a~~~~~~~-~~  361 (440)
                      +.+.++++.++..|.+.......|+...                         ...-...+.+.|++..|+..|.++ ..
T Consensus       308 ~~k~~~~~~ai~~~~kaLte~Rt~~~ls~lk~~Ek~~k~~e~~a~~~pe~A~e~r~kGne~Fk~gdy~~Av~~YteAIkr  387 (539)
T KOG0548|consen  308 YTKREDYEGAIKYYQKALTEHRTPDLLSKLKEAEKALKEAERKAYINPEKAEEEREKGNEAFKKGDYPEAVKHYTEAIKR  387 (539)
T ss_pred             hhhHHhHHHHHHHHHHHhhhhcCHHHHHHHHHHHHHHHHHHHHHhhChhHHHHHHHHHHHHHhccCHHHHHHHHHHHHhc
Confidence            3444555555555555443322222111                         112245567889999999999998 44


Q ss_pred             Cc-cHhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCCchHHHHHHHHHhccChHHHHHHHHHHHhcCC
Q 039362          362 EP-TASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEARTTREAMETRGV  430 (440)
Q Consensus       362 ~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  430 (440)
                      .| |...|..-..+|.+.|.+..|+.-.+..++++|+....|..-+.++....+|++|.+.|++.++...
T Consensus       388 ~P~Da~lYsNRAac~~kL~~~~~aL~Da~~~ieL~p~~~kgy~RKg~al~~mk~ydkAleay~eale~dp  457 (539)
T KOG0548|consen  388 DPEDARLYSNRAACYLKLGEYPEALKDAKKCIELDPNFIKAYLRKGAALRAMKEYDKALEAYQEALELDP  457 (539)
T ss_pred             CCchhHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCc
Confidence            56 5678888999999999999999999999999999988898889999999999999999988887653

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=99.11  E-value=4.7e-07  Score=82.21  Aligned_cols=26  Identities=8%  Similarity=-0.005  Sum_probs=12.3

Q ss_pred             HHHHHHHHHhccChHHHHHHHHHHHh
Q 039362          402 YVGLSNVYAIFKRWDEARTTREAMET  427 (440)
Q Consensus       402 ~~~l~~~~~~~g~~~~A~~~~~~~~~  427 (440)
                      ...++..+-..|++++|-+-+-+.++
T Consensus       998 hlk~a~~ledegk~edaskhyveaik 1023 (1636)
T KOG3616|consen  998 HLKLAMFLEDEGKFEDASKHYVEAIK 1023 (1636)
T ss_pred             hhHHhhhhhhccchhhhhHhhHHHhh
Confidence            33444444455555555444444433

>PLN02789 farnesyltranstransferase

Probab=99.06  E-value=2e-07  Score=79.92  Aligned_cols=214  Identities=9%  Similarity=-0.015  Sum_probs=111.5

Q ss_pred             CChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcC-CHHHHHHHHhhhhhcCC-chhhHHHHHHHHHhcCCh--HHHHH
Q 039362          209 GALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCG-AIKEALIVFHGVEKHQS-DVLIWNAMIGGLAMHGFV--KESLE  284 (440)
Q Consensus       209 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~--~~a~~  284 (440)
                      +..++|.....++++.+ +.+..+|+.-..++...| ++++++..++++.+..| +..+|+.....+.+.|+.  ++++.
T Consensus        51 e~serAL~lt~~aI~ln-P~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~npknyqaW~~R~~~l~~l~~~~~~~el~  129 (320)
T PLN02789         51 ERSPRALDLTADVIRLN-PGNYTVWHFRRLCLEALDADLEEELDFAEDVAEDNPKNYQIWHHRRWLAEKLGPDAANKELE  129 (320)
T ss_pred             CCCHHHHHHHHHHHHHC-chhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHCCcchHHhHHHHHHHHHcCchhhHHHHH
Confidence            34444444444444443 333334433333344444 34555555555544433 233444333333333332  44555


Q ss_pred             HHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhc---CCH----HHHHHHHh
Q 039362          285 LFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRA---GQV----TEAYEFIC  357 (440)
Q Consensus       285 ~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---~~~----~~a~~~~~  357 (440)
                      +++++.+.. +-|..+|.....++.+.|+++++++.++++++.++. +...|+.....+.+.   |..    ++.+++..
T Consensus       130 ~~~kal~~d-pkNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d~~-N~sAW~~R~~vl~~~~~l~~~~~~~e~el~y~~  207 (320)
T PLN02789        130 FTRKILSLD-AKNYHAWSHRQWVLRTLGGWEDELEYCHQLLEEDVR-NNSAWNQRYFVITRSPLLGGLEAMRDSELKYTI  207 (320)
T ss_pred             HHHHHHHhC-cccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHCCC-chhHHHHHHHHHHhccccccccccHHHHHHHHH
Confidence            555555443 334445555555555555666666666666554422 344444444333332   212    34555553


Q ss_pred             cC-CCCc-cHhHHHHHHHHHHhc----CChhHHHHHHHHHHhcCCCCCchHHHHHHHHHhcc------------------
Q 039362          358 QM-PLEP-TASMLGSLLTGCMNH----GKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFK------------------  413 (440)
Q Consensus       358 ~~-~~~p-~~~~~~~l~~~~~~~----g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g------------------  413 (440)
                      ++ ...| +...|+.+...+...    +...+|.+.+.++.+.+|.++.++..|+..|....                  
T Consensus       208 ~aI~~~P~N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~~~~~s~~al~~l~d~~~~~~~~~~~~~~~~~~~~~~~~  287 (320)
T PLN02789        208 DAILANPRNESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLSKDSNHVFALSDLLDLLCEGLQPTAEFRDTVDTLAEELS  287 (320)
T ss_pred             HHHHhCCCCcCHHHHHHHHHhcCCcccccchhHHHHHHHhhcccCCcHHHHHHHHHHHHhhhccchhhhhhhhccccccc
Confidence            43 4445 345666666666552    34566888888877777888878888888887632                  


Q ss_pred             ChHHHHHHHHHH
Q 039362          414 RWDEARTTREAM  425 (440)
Q Consensus       414 ~~~~A~~~~~~~  425 (440)
                      ..++|.++++.+
T Consensus       288 ~~~~a~~~~~~l  299 (320)
T PLN02789        288 DSTLAQAVCSEL  299 (320)
T ss_pred             cHHHHHHHHHHH
Confidence            346788888777

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

Probab=99.05  E-value=3.6e-08  Score=95.01  Aligned_cols=202  Identities=13%  Similarity=0.065  Sum_probs=128.1

Q ss_pred             CCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhc-CC-----chhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhh
Q 039362          227 SLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKH-QS-----DVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEIT  300 (440)
Q Consensus       227 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~~-----~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~  300 (440)
                      |.+...|...+......++.++|+++.+++.+. .+     -...|.+++..-...|.-+...++|+++.+.-  ..-..
T Consensus      1455 PNSSi~WI~YMaf~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqyc--d~~~V 1532 (1710)
T KOG1070|consen 1455 PNSSILWIRYMAFHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQYC--DAYTV 1532 (1710)
T ss_pred             CCcchHHHHHHHHHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHhc--chHHH
Confidence            445556666666667777777777777666532 11     22356666665555566666677777766531  12235


Q ss_pred             HHHHHHHHHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcC-CCCcc---HhHHHHHHHHHH
Q 039362          301 FLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQM-PLEPT---ASMLGSLLTGCM  376 (440)
Q Consensus       301 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p~---~~~~~~l~~~~~  376 (440)
                      |..|...|.+.+.+++|.++++.|.+. +.-....|...+..+.+.++-+.|.++++++ ..-|.   .......+..-.
T Consensus      1533 ~~~L~~iy~k~ek~~~A~ell~~m~KK-F~q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~lPk~eHv~~IskfAqLEF 1611 (1710)
T KOG1070|consen 1533 HLKLLGIYEKSEKNDEADELLRLMLKK-FGQTRKVWIMYADFLLRQNEAEAARELLKRALKSLPKQEHVEFISKFAQLEF 1611 (1710)
T ss_pred             HHHHHHHHHHhhcchhHHHHHHHHHHH-hcchhhHHHHHHHHHhcccHHHHHHHHHHHHHhhcchhhhHHHHHHHHHHHh
Confidence            666667777777777777777777765 1234556667777777777777777777665 32332   334444445555


Q ss_pred             hcCChhHHHHHHHHHHhcCCCCCchHHHHHHHHHhccChHHHHHHHHHHHhcCCc
Q 039362          377 NHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEARTTREAMETRGVK  431 (440)
Q Consensus       377 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  431 (440)
                      +.|+.+++..+|+..+...|.....|..+++.-.+.|+.+.++.+|+++...+++
T Consensus      1612 k~GDaeRGRtlfEgll~ayPKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~ 1666 (1710)
T KOG1070|consen 1612 KYGDAERGRTLFEGLLSAYPKRTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLS 1666 (1710)
T ss_pred             hcCCchhhHHHHHHHHhhCccchhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCC
Confidence            6777777777777777777777777777777777777777777777777766654

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

Probab=99.04  E-value=2.9e-08  Score=79.26  Aligned_cols=120  Identities=12%  Similarity=0.013  Sum_probs=75.0

Q ss_pred             CCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcC-CCCc-cHhHHHHHHHHH-HhcCC--hhHHH
Q 039362          311 GGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQM-PLEP-TASMLGSLLTGC-MNHGK--LDLAE  385 (440)
Q Consensus       311 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~-~~~g~--~~~a~  385 (440)
                      .++.+++...++...+.. +.+...|..+...|...|++++|...+++. .+.| +...+..+..++ ...|+  .++|.
T Consensus        52 ~~~~~~~i~~l~~~L~~~-P~~~~~w~~Lg~~~~~~g~~~~A~~a~~~Al~l~P~~~~~~~~lA~aL~~~~g~~~~~~A~  130 (198)
T PRK10370         52 QQTPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWRNDYDNALLAYRQALQLRGENAELYAALATVLYYQAGQHMTPQTR  130 (198)
T ss_pred             chhHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCCCCcHHHH
Confidence            445555555555555543 235556666666677777777777777666 4444 345555555543 45555  46777


Q ss_pred             HHHHHHHhcCCCCCchHHHHHHHHHhccChHHHHHHHHHHHhcCCc
Q 039362          386 IVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEARTTREAMETRGVK  431 (440)
Q Consensus       386 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  431 (440)
                      .+++++++.+|.++.++..++..+.+.|++++|...++++++...+
T Consensus       131 ~~l~~al~~dP~~~~al~~LA~~~~~~g~~~~Ai~~~~~aL~l~~~  176 (198)
T PRK10370        131 EMIDKALALDANEVTALMLLASDAFMQADYAQAIELWQKVLDLNSP  176 (198)
T ss_pred             HHHHHHHHhCCCChhHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC
Confidence            7777777777777777777777777777777777777777665543

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

Probab=99.01  E-value=4.8e-08  Score=85.90  Aligned_cols=250  Identities=17%  Similarity=0.102  Sum_probs=187.3

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCH
Q 039362          167 IDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAI  246 (440)
Q Consensus       167 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  246 (440)
                      ..-+.+.|++.+|.=.|+..+..+ +-+...|..|.......++-..|+..+++.++.. +.+..+...|.-.|...|.-
T Consensus       292 G~~lm~nG~L~~A~LafEAAVkqd-P~haeAW~~LG~~qaENE~E~~ai~AL~rcl~Ld-P~NleaLmaLAVSytNeg~q  369 (579)
T KOG1125|consen  292 GCNLMKNGDLSEAALAFEAAVKQD-PQHAEAWQKLGITQAENENEQNAISALRRCLELD-PTNLEALMALAVSYTNEGLQ  369 (579)
T ss_pred             HHHHHhcCCchHHHHHHHHHHhhC-hHHHHHHHHhhhHhhhccchHHHHHHHHHHHhcC-CccHHHHHHHHHHHhhhhhH
Confidence            345678888999999999888774 4466788888888888888889999999999887 77888899999999999999


Q ss_pred             HHHHHHHhhhhhcCCchhhHHH-----H-H--HHHHhcCChHHHHHHHHHH-HHcCCCccHhhHHHHHHHHHcCCChHHH
Q 039362          247 KEALIVFHGVEKHQSDVLIWNA-----M-I--GGLAMHGFVKESLELFTEM-QIVGITPDEITFLGLLSACAHGGLVMEA  317 (440)
Q Consensus       247 ~~A~~~~~~~~~~~~~~~~~~~-----l-~--~~~~~~~~~~~a~~~~~~m-~~~~~~p~~~~~~~l~~~~~~~~~~~~a  317 (440)
                      ..|...++.-....|.-.....     . .  ..+.....+....++|-++ .+.+..+|+.....|.-.|.-.|++++|
T Consensus       370 ~~Al~~L~~Wi~~~p~y~~l~~a~~~~~~~~~~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdra  449 (579)
T KOG1125|consen  370 NQALKMLDKWIRNKPKYVHLVSAGENEDFENTKSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDRA  449 (579)
T ss_pred             HHHHHHHHHHHHhCccchhccccCccccccCCcCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHHH
Confidence            9999988876543221100000     0 0  1112222334455555554 4444447777788888888889999999


Q ss_pred             HHHHHHHhhcCCCC-CcchHHHHHHHHHhcCCHHHHHHHHhcC-CCCccH-hHHHHHHHHHHhcCChhHHHHHHHHHHhc
Q 039362          318 WYFFKSLGKRGMVP-KSEHYACMVDALSRAGQVTEAYEFICQM-PLEPTA-SMLGSLLTGCMNHGKLDLAEIVGKKLVEL  394 (440)
Q Consensus       318 ~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p~~-~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  394 (440)
                      ...|+.++..  +| |..+||.|.-.+....+.++|+..|+++ .++|.- .....|..+|+..|.+++|.+.|-.++.+
T Consensus       450 iDcf~~AL~v--~Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALqLqP~yVR~RyNlgIS~mNlG~ykEA~~hlL~AL~m  527 (579)
T KOG1125|consen  450 VDCFEAALQV--KPNDYLLWNRLGATLANGNRSEEAISAYNRALQLQPGYVRVRYNLGISCMNLGAYKEAVKHLLEALSM  527 (579)
T ss_pred             HHHHHHHHhc--CCchHHHHHHhhHHhcCCcccHHHHHHHHHHHhcCCCeeeeehhhhhhhhhhhhHHHHHHHHHHHHHh
Confidence            9999999885  45 6778999999999999999999999998 888865 67778999999999999999999999886


Q ss_pred             CCCC----------CchHHHHHHHHHhccChHHHHH
Q 039362          395 QPDH----------DGRYVGLSNVYAIFKRWDEART  420 (440)
Q Consensus       395 ~~~~----------~~~~~~l~~~~~~~g~~~~A~~  420 (440)
                      .+.+          ..+|..|=.++.-.++.|-+.+
T Consensus       528 q~ks~~~~~~~~~se~iw~tLR~als~~~~~D~l~~  563 (579)
T KOG1125|consen  528 QRKSRNHNKAPMASENIWQTLRLALSAMNRSDLLQE  563 (579)
T ss_pred             hhcccccccCCcchHHHHHHHHHHHHHcCCchHHHH
Confidence            5431          1366666666666676664443

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

Probab=99.01  E-value=6.9e-08  Score=87.23  Aligned_cols=218  Identities=12%  Similarity=-0.021  Sum_probs=171.3

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCCchhhHHHHHHHHHh
Q 039362          196 VTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQSDVLIWNAMIGGLAM  275 (440)
Q Consensus       196 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~  275 (440)
                      ..-..+...+.+.|-...|..+++++.         .+...+.+|...|+..+|..+..+..+.+|+...|..+......
T Consensus       399 q~q~~laell~slGitksAl~I~Erle---------mw~~vi~CY~~lg~~~kaeei~~q~lek~~d~~lyc~LGDv~~d  469 (777)
T KOG1128|consen  399 QLQRLLAELLLSLGITKSALVIFERLE---------MWDPVILCYLLLGQHGKAEEINRQELEKDPDPRLYCLLGDVLHD  469 (777)
T ss_pred             hHHHHHHHHHHHcchHHHHHHHHHhHH---------HHHHHHHHHHHhcccchHHHHHHHHhcCCCcchhHHHhhhhccC
Confidence            334456667777788888888887654         45567888888888888888888877767788888888887777


Q ss_pred             cCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHH
Q 039362          276 HGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEF  355 (440)
Q Consensus       276 ~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  355 (440)
                      ..-+++|.++.+.....       .-..+.....+.++++++.+.|+.-.+.+ +....+|-.+.-+..+.+++..|.+.
T Consensus       470 ~s~yEkawElsn~~sar-------A~r~~~~~~~~~~~fs~~~~hle~sl~~n-plq~~~wf~~G~~ALqlek~q~av~a  541 (777)
T KOG1128|consen  470 PSLYEKAWELSNYISAR-------AQRSLALLILSNKDFSEADKHLERSLEIN-PLQLGTWFGLGCAALQLEKEQAAVKA  541 (777)
T ss_pred             hHHHHHHHHHhhhhhHH-------HHHhhccccccchhHHHHHHHHHHHhhcC-ccchhHHHhccHHHHHHhhhHHHHHH
Confidence            77778888887764322       11111122234688999999998877753 23566788888888899999999999


Q ss_pred             HhcC-CCCccH-hHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCCchHHHHHHHHHhccChHHHHHHHHHHHhcCC
Q 039362          356 ICQM-PLEPTA-SMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEARTTREAMETRGV  430 (440)
Q Consensus       356 ~~~~-~~~p~~-~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  430 (440)
                      |... ...|+. ..|+++..+|.+.|+-.+|...+.++.+.+-.+..+|...+......|.+++|.+.+.++.....
T Consensus       542 F~rcvtL~Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn~~~w~iWENymlvsvdvge~eda~~A~~rll~~~~  618 (777)
T KOG1128|consen  542 FHRCVTLEPDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCNYQHWQIWENYMLVSVDVGEFEDAIKAYHRLLDLRK  618 (777)
T ss_pred             HHHHhhcCCCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcCCCCCeeeechhhhhhhcccHHHHHHHHHHHHHhhh
Confidence            9887 677866 78999999999999999999999999999988888999999999999999999999999987644

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=99.01  E-value=5.5e-08  Score=81.04  Aligned_cols=184  Identities=15%  Similarity=0.028  Sum_probs=132.8

Q ss_pred             CCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCCch----hhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHh---
Q 039362          227 SLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQSDV----LIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEI---  299 (440)
Q Consensus       227 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~---  299 (440)
                      ......+..++..+...|++++|...|+++....|+.    ..+..+..++...|++++|...++++.+..  |+..   
T Consensus        30 ~~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~--p~~~~~~  107 (235)
T TIGR03302        30 EWPAEELYEEAKEALDSGDYTEAIKYFEALESRYPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLH--PNHPDAD  107 (235)
T ss_pred             cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHC--cCCCchH
Confidence            3456677788888999999999999999988776643    356778889999999999999999998763  3222   


Q ss_pred             -hHHHHHHHHHcC--------CChHHHHHHHHHHhhcCCCCCcc-hHHHHHHHHHhcCCHHHHHHHHhcCCCCccHhHHH
Q 039362          300 -TFLGLLSACAHG--------GLVMEAWYFFKSLGKRGMVPKSE-HYACMVDALSRAGQVTEAYEFICQMPLEPTASMLG  369 (440)
Q Consensus       300 -~~~~l~~~~~~~--------~~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~p~~~~~~  369 (440)
                       ++..+..++...        |+.++|.+.++.+.+..  |+.. .+..+... ..   .....           .....
T Consensus       108 ~a~~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~a~~~~-~~---~~~~~-----------~~~~~  170 (235)
T TIGR03302       108 YAYYLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRRY--PNSEYAPDAKKRM-DY---LRNRL-----------AGKEL  170 (235)
T ss_pred             HHHHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHHC--CCChhHHHHHHHH-HH---HHHHH-----------HHHHH
Confidence             345555555544        67888999999888753  4332 22222111 11   11100           01112


Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHhcCCCCC---chHHHHHHHHHhccChHHHHHHHHHHHhcC
Q 039362          370 SLLTGCMNHGKLDLAEIVGKKLVELQPDHD---GRYVGLSNVYAIFKRWDEARTTREAMETRG  429 (440)
Q Consensus       370 ~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~---~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  429 (440)
                      .+...+.+.|++++|+..++++++..|.++   ..+..++.++...|++++|..+++.+....
T Consensus       171 ~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~~  233 (235)
T TIGR03302       171 YVARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGANY  233 (235)
T ss_pred             HHHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence            566678899999999999999999877654   578899999999999999999999887654

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).

>PRK04841 transcriptional regulator MalT; Provisional

Probab=99.00  E-value=3e-06  Score=85.61  Aligned_cols=366  Identities=11%  Similarity=-0.045  Sum_probs=222.8

Q ss_pred             HHHHHHHHHHccCChhhHHHHHHHHHHcCCCCC-cchHHHHHHHhhchhcHHHHHHHHHHHHHcCCCCcHHHHHHHHHHH
Q 039362           30 YWNTVIRGYSKSKNPNKSISLFVKMLRAGVSPD-HLTYPFLAKASGRLAKRELAVAVHAQIAKTGYESDLFISNSLIHMY  108 (440)
Q Consensus        30 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  108 (440)
                      .+......+...|++.+|...+.....   .+. ..............|+++.+..+++.+-......+..........+
T Consensus       343 lh~raa~~~~~~g~~~~Al~~a~~a~d---~~~~~~ll~~~a~~l~~~g~~~~l~~~l~~lp~~~~~~~~~l~~~~a~~~  419 (903)
T PRK04841        343 LHRAAAEAWLAQGFPSEAIHHALAAGD---AQLLRDILLQHGWSLFNQGELSLLEECLNALPWEVLLENPRLVLLQAWLA  419 (903)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHCCC---HHHHHHHHHHhHHHHHhcCChHHHHHHHHhCCHHHHhcCcchHHHHHHHH
Confidence            455566677788888877765443311   110 0111222233445677777777766542111112222334445556


Q ss_pred             HhcCCHHHHHHHhhCCCC----C----c----hhhHHHHHHHHHhcCChHHHHHHHhhCCC----Cc----hhhHHHHHH
Q 039362          109 GSCGDIVYAREVFDGMPT----K----M----SVSWNSMLDGYAKCGEMNMARQVFELMPE----RN----VVSWSALID  168 (440)
Q Consensus       109 ~~~g~~~~a~~~~~~~~~----~----~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~----~~----~~~~~~l~~  168 (440)
                      ...|+++++...+.....    .    +    ......+...+...|++++|...++....    .+    ....+.+..
T Consensus       420 ~~~g~~~~a~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~a~~~lg~  499 (903)
T PRK04841        420 QSQHRYSEVNTLLARAEQELKDRNIELDGTLQAEFNALRAQVAINDGDPEEAERLAELALAELPLTWYYSRIVATSVLGE  499 (903)
T ss_pred             HHCCCHHHHHHHHHHHHHhccccCcccchhHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHH
Confidence            677888888877765421    1    1    11122233455678999999888877543    11    124456667


Q ss_pred             HHHhcCCHHHHHHHHHHHHhcCC---CCC--HHHHHHHHHHHHhcCChHHHHHHHHHHHHc----CCCC---chhhHHHH
Q 039362          169 GYVKCGDYKEALVIFEEMRDVGS---KAN--EVTLVSVLCACAHLGALDQGRMMLRYMIDK----GLSL---TLPLQTSL  236 (440)
Q Consensus       169 ~~~~~~~~~~a~~~~~~~~~~~~---~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~---~~~~~~~l  236 (440)
                      .+...|++++|...+++.....-   .+.  ...+..+...+...|+++.|...+++..+.    +...   ....+..+
T Consensus       500 ~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l  579 (903)
T PRK04841        500 VHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEILFAQGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIR  579 (903)
T ss_pred             HHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHH
Confidence            77889999999999888754211   111  234455666778899999999988876543    2111   12334556


Q ss_pred             HHHHHhcCCHHHHHHHHhhhhhc----CC--chhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCc-cHhhH-----HHH
Q 039362          237 IDMYAKCGAIKEALIVFHGVEKH----QS--DVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITP-DEITF-----LGL  304 (440)
Q Consensus       237 ~~~~~~~g~~~~A~~~~~~~~~~----~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~~-----~~l  304 (440)
                      ...+...|++++|...+.+....    .+  ....+..+...+...|++++|.+.+.+........ ....+     ...
T Consensus       580 a~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~  659 (903)
T PRK04841        580 AQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKISLARGDLDNARRYLNRLENLLGNGRYHSDWIANADKVR  659 (903)
T ss_pred             HHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccHhHhhHHHHHH
Confidence            66778889999999998887543    12  12344456667788999999999998875421111 11111     111


Q ss_pred             HHHHHcCCChHHHHHHHHHHhhcCCCCCc---chHHHHHHHHHhcCCHHHHHHHHhcC-------CCCcc-HhHHHHHHH
Q 039362          305 LSACAHGGLVMEAWYFFKSLGKRGMVPKS---EHYACMVDALSRAGQVTEAYEFICQM-------PLEPT-ASMLGSLLT  373 (440)
Q Consensus       305 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~-------~~~p~-~~~~~~l~~  373 (440)
                      +..+...|+.+.|...+............   ..+..+..++...|++++|...+++.       +..++ ..+...+..
T Consensus       660 ~~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~l~~al~~~~~~g~~~~~a~~~~~la~  739 (903)
T PRK04841        660 LIYWQMTGDKEAAANWLRQAPKPEFANNHFLQGQWRNIARAQILLGQFDEAEIILEELNENARSLRLMSDLNRNLILLNQ  739 (903)
T ss_pred             HHHHHHCCCHHHHHHHHHhcCCCCCccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCchHHHHHHHHHHHH
Confidence            23345578999999888776542111110   11345677788999999999988876       22222 245666777


Q ss_pred             HHHhcCChhHHHHHHHHHHhcCCCC
Q 039362          374 GCMNHGKLDLAEIVGKKLVELQPDH  398 (440)
Q Consensus       374 ~~~~~g~~~~a~~~~~~~~~~~~~~  398 (440)
                      ++...|+.++|...+.++.+.....
T Consensus       740 a~~~~G~~~~A~~~L~~Al~la~~~  764 (903)
T PRK04841        740 LYWQQGRKSEAQRVLLEALKLANRT  764 (903)
T ss_pred             HHHHcCCHHHHHHHHHHHHHHhCcc
Confidence            8889999999999999999977443

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=98.98  E-value=2.3e-06  Score=78.76  Aligned_cols=356  Identities=10%  Similarity=0.051  Sum_probs=207.7

Q ss_pred             CCCChHHHHHHHHH--HHccCChhhHHHHHHHHHHcCCCCCcchHHHHHHHhhchhcHHHHHHHHHHHHHc-C-------
Q 039362           24 SNPRIFYWNTVIRG--YSKSKNPNKSISLFVKMLRAGVSPDHLTYPFLAKASGRLAKRELAVAVHAQIAKT-G-------   93 (440)
Q Consensus        24 ~~~~~~~~~~l~~~--~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~-------   93 (440)
                      ..=|..+-..+++.  |...|+.+.|.+-.+-.+.      ...|..+.+.|.+.++.+-|.-.+-.|... |       
T Consensus       722 e~Cd~~TRkaml~FSfyvtiG~MD~AfksI~~IkS------~~vW~nmA~McVkT~RLDVAkVClGhm~~aRgaRAlR~a  795 (1416)
T KOG3617|consen  722 ENCDESTRKAMLDFSFYVTIGSMDAAFKSIQFIKS------DSVWDNMASMCVKTRRLDVAKVCLGHMKNARGARALRRA  795 (1416)
T ss_pred             cccCHHHHHhhhceeEEEEeccHHHHHHHHHHHhh------hHHHHHHHHHhhhhccccHHHHhhhhhhhhhhHHHHHHH
Confidence            34567777777754  7889999999887766543      457899999999988888777666555421 0       


Q ss_pred             -CCCcHHHHHHHHHHHHhcCCHHHHHHHhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHhhCCC-CchhhHHHHHHHHH
Q 039362           94 -YESDLFISNSLIHMYGSCGDIVYAREVFDGMPTKMSVSWNSMLDGYAKCGEMNMARQVFELMPE-RNVVSWSALIDGYV  171 (440)
Q Consensus        94 -~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-~~~~~~~~l~~~~~  171 (440)
                       -.++ .+-....-.....|.+++|..+|.+...     |..|-+.|...|.|++|.++-+.-.+ .=..||......+-
T Consensus       796 ~q~~~-e~eakvAvLAieLgMlEeA~~lYr~ckR-----~DLlNKlyQs~g~w~eA~eiAE~~DRiHLr~Tyy~yA~~Le  869 (1416)
T KOG3617|consen  796 QQNGE-EDEAKVAVLAIELGMLEEALILYRQCKR-----YDLLNKLYQSQGMWSEAFEIAETKDRIHLRNTYYNYAKYLE  869 (1416)
T ss_pred             HhCCc-chhhHHHHHHHHHhhHHHHHHHHHHHHH-----HHHHHHHHHhcccHHHHHHHHhhccceehhhhHHHHHHHHH
Confidence             1121 2222333445677899999999987754     55666778888999999888665433 22346667777777


Q ss_pred             hcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHH
Q 039362          172 KCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALI  251 (440)
Q Consensus       172 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  251 (440)
                      ..++.+.|++.|++..    .|-...+..|.      .++.....+.+.+      .|...|......+-..|+.+.|+.
T Consensus       870 ar~Di~~AleyyEK~~----~hafev~rmL~------e~p~~~e~Yv~~~------~d~~L~~WWgqYlES~GemdaAl~  933 (1416)
T KOG3617|consen  870 ARRDIEAALEYYEKAG----VHAFEVFRMLK------EYPKQIEQYVRRK------RDESLYSWWGQYLESVGEMDAALS  933 (1416)
T ss_pred             hhccHHHHHHHHHhcC----ChHHHHHHHHH------hChHHHHHHHHhc------cchHHHHHHHHHHhcccchHHHHH
Confidence            7888999999888642    11111111111      1222222232222      234566666666777788888888


Q ss_pred             HHhhhhhcCCchhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHhhcC--C
Q 039362          252 VFHGVEKHQSDVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKRG--M  329 (440)
Q Consensus       252 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~  329 (440)
                      +|....       -|-.++...|-.|+.++|-++-++      .-|......+.+.|...|++.+|..+|.++....  +
T Consensus       934 ~Y~~A~-------D~fs~VrI~C~qGk~~kAa~iA~e------sgd~AAcYhlaR~YEn~g~v~~Av~FfTrAqafsnAI 1000 (1416)
T KOG3617|consen  934 FYSSAK-------DYFSMVRIKCIQGKTDKAARIAEE------SGDKAACYHLARMYENDGDVVKAVKFFTRAQAFSNAI 1000 (1416)
T ss_pred             HHHHhh-------hhhhheeeEeeccCchHHHHHHHh------cccHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHH
Confidence            887766       244555566667777777766553      2244455566777777777777777776654320  0


Q ss_pred             C--CCcchHHHHHHHH--HhcCCHHHHHHHHhcCCCCccHhHHHHHHHHHHhcCChhHHHHHHHHH----------HhcC
Q 039362          330 V--PKSEHYACMVDAL--SRAGQVTEAYEFICQMPLEPTASMLGSLLTGCMNHGKLDLAEIVGKKL----------VELQ  395 (440)
Q Consensus       330 ~--~~~~~~~~l~~~~--~~~~~~~~a~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~----------~~~~  395 (440)
                      .  .....-..|....  ....+.-.|-.+|++.+...+     ..+..|-+.|.+.+|+++.-+.          .+++
T Consensus      1001 RlcKEnd~~d~L~nlal~s~~~d~v~aArYyEe~g~~~~-----~AVmLYHkAGm~~kALelAF~tqQf~aL~lIa~DLd 1075 (1416)
T KOG3617|consen 1001 RLCKENDMKDRLANLALMSGGSDLVSAARYYEELGGYAH-----KAVMLYHKAGMIGKALELAFRTQQFSALDLIAKDLD 1075 (1416)
T ss_pred             HHHHhcCHHHHHHHHHhhcCchhHHHHHHHHHHcchhhh-----HHHHHHHhhcchHHHHHHHHhhcccHHHHHHHHhcC
Confidence            0  0000001111111  122234445555555542221     1122344566666655543221          1234


Q ss_pred             C-CCCchHHHHHHHHHhccChHHHHHHHHHH
Q 039362          396 P-DHDGRYVGLSNVYAIFKRWDEARTTREAM  425 (440)
Q Consensus       396 ~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  425 (440)
                      | .+|.....-++.+....++++|..++-..
T Consensus      1076 ~~sDp~ll~RcadFF~~~~qyekAV~lL~~a 1106 (1416)
T KOG3617|consen 1076 AGSDPKLLRRCADFFENNQQYEKAVNLLCLA 1106 (1416)
T ss_pred             CCCCHHHHHHHHHHHHhHHHHHHHHHHHHHH
Confidence            3 34456666677777777777777665443

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.97  E-value=1.1e-05  Score=76.14  Aligned_cols=258  Identities=12%  Similarity=0.090  Sum_probs=119.8

Q ss_pred             HHHHHHHHHhcCChHHHHHHHhhCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCh
Q 039362          132 WNSMLDGYAKCGEMNMARQVFELMPERNVVSWSALIDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGAL  211 (440)
Q Consensus       132 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  211 (440)
                      |..+..+-.+.|.+.+|++-|-+.  .|+..|..+++...+.|.|++-.+.+.-..+..-.|...  +.++-+|++.++.
T Consensus      1107 WsqlakAQL~~~~v~dAieSyika--dDps~y~eVi~~a~~~~~~edLv~yL~MaRkk~~E~~id--~eLi~AyAkt~rl 1182 (1666)
T KOG0985|consen 1107 WSQLAKAQLQGGLVKDAIESYIKA--DDPSNYLEVIDVASRTGKYEDLVKYLLMARKKVREPYID--SELIFAYAKTNRL 1182 (1666)
T ss_pred             HHHHHHHHHhcCchHHHHHHHHhc--CCcHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhcCccch--HHHHHHHHHhchH
Confidence            444444444444444444444333  233344444444444444444444443333332222222  2234444444444


Q ss_pred             HHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCCchhhHHHHHHHHHhcCChHHHHHHHHHHHH
Q 039362          212 DQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQSDVLIWNAMIGGLAMHGFVKESLELFTEMQI  291 (440)
Q Consensus       212 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~  291 (440)
                      .+.++++.       -|+......+..-+...|.++.|.-+|..       +..|..+...+...|++..|...-++   
T Consensus      1183 ~elE~fi~-------gpN~A~i~~vGdrcf~~~~y~aAkl~y~~-------vSN~a~La~TLV~LgeyQ~AVD~aRK--- 1245 (1666)
T KOG0985|consen 1183 TELEEFIA-------GPNVANIQQVGDRCFEEKMYEAAKLLYSN-------VSNFAKLASTLVYLGEYQGAVDAARK--- 1245 (1666)
T ss_pred             HHHHHHhc-------CCCchhHHHHhHHHhhhhhhHHHHHHHHH-------hhhHHHHHHHHHHHHHHHHHHHHhhh---
Confidence            33333221       23333334444444444444444444332       22455555555666666666554332   


Q ss_pred             cCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcC-CCCc-cHhHHH
Q 039362          292 VGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQM-PLEP-TASMLG  369 (440)
Q Consensus       292 ~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~  369 (440)
                         ..+..||..+-.+|...+.+.-|     .|...++.....-...++..|...|-+++.+.+++.. |+.- ....|.
T Consensus      1246 ---Ans~ktWK~VcfaCvd~~EFrlA-----QiCGL~iivhadeLeeli~~Yq~rGyFeElIsl~Ea~LGLERAHMgmfT 1317 (1666)
T KOG0985|consen 1246 ---ANSTKTWKEVCFACVDKEEFRLA-----QICGLNIIVHADELEELIEYYQDRGYFEELISLLEAGLGLERAHMGMFT 1317 (1666)
T ss_pred             ---ccchhHHHHHHHHHhchhhhhHH-----HhcCceEEEehHhHHHHHHHHHhcCcHHHHHHHHHhhhchhHHHHHHHH
Confidence               22445666666666655544322     2333233334445566777777777777777777765 4432 345555


Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHhcCCCCCchHHHHHHHHHhccChHHHHHHHHH
Q 039362          370 SLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEARTTREA  424 (440)
Q Consensus       370 ~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  424 (440)
                      .|.-.|.+- ++++-.+.++-....-     -.-.++.++-++.-|.+..-++.+
T Consensus      1318 ELaiLYsky-kp~km~EHl~LFwsRv-----NipKviRA~eqahlW~ElvfLY~~ 1366 (1666)
T KOG0985|consen 1318 ELAILYSKY-KPEKMMEHLKLFWSRV-----NIPKVIRAAEQAHLWSELVFLYDK 1366 (1666)
T ss_pred             HHHHHHHhc-CHHHHHHHHHHHHHhc-----chHHHHHHHHHHHHHHHHHHHHHh
Confidence            665555544 3444444444332211     112345555555566665555443

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=98.97  E-value=4.5e-07  Score=84.92  Aligned_cols=386  Identities=14%  Similarity=0.054  Sum_probs=222.5

Q ss_pred             ChhhHHHHHHHHHHcCCCCC-cchHHHHHHHhhchhcHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhcCCHHHHHHHh
Q 039362           43 NPNKSISLFVKMLRAGVSPD-HLTYPFLAKASGRLAKRELAVAVHAQIAKTGYESDLFISNSLIHMYGSCGDIVYAREVF  121 (440)
Q Consensus        43 ~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~  121 (440)
                      +...|+..|-+..+.  .|+ ...|..|...|....+...|.+.|+...+.+.. +........+.|++..+++.|..+.
T Consensus       473 ~~~~al~ali~alrl--d~~~apaf~~LG~iYrd~~Dm~RA~kCf~KAFeLDat-daeaaaa~adtyae~~~we~a~~I~  549 (1238)
T KOG1127|consen  473 NSALALHALIRALRL--DVSLAPAFAFLGQIYRDSDDMKRAKKCFDKAFELDAT-DAEAAAASADTYAEESTWEEAFEIC  549 (1238)
T ss_pred             hHHHHHHHHHHHHhc--ccchhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCch-hhhhHHHHHHHhhccccHHHHHHHH
Confidence            356666666555553  233 346888888888888889999999999887643 6777888999999999999998885


Q ss_pred             hCCCCCc-----hhhHHHHHHHHHhcCChHHHHHHHhhCCC---CchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC
Q 039362          122 DGMPTKM-----SVSWNSMLDGYAKCGEMNMARQVFELMPE---RNVVSWSALIDGYVKCGDYKEALVIFEEMRDVGSKA  193 (440)
Q Consensus       122 ~~~~~~~-----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  193 (440)
                      -...+.+     ...|....-.|...++..+|..-|+...+   .|...|..+..+|...|++..|+++|.+....  .|
T Consensus       550 l~~~qka~a~~~k~nW~~rG~yyLea~n~h~aV~~fQsALR~dPkD~n~W~gLGeAY~~sGry~~AlKvF~kAs~L--rP  627 (1238)
T KOG1127|consen  550 LRAAQKAPAFACKENWVQRGPYYLEAHNLHGAVCEFQSALRTDPKDYNLWLGLGEAYPESGRYSHALKVFTKASLL--RP  627 (1238)
T ss_pred             HHHhhhchHHHHHhhhhhccccccCccchhhHHHHHHHHhcCCchhHHHHHHHHHHHHhcCceehHHHhhhhhHhc--Cc
Confidence            4333322     12344445557788889999998888775   36678888999999999999999999888765  44


Q ss_pred             CH-HHHHHHHHHHHhcCChHHHHHHHHHHHHcC------CCCchhhHHHHHHHHHhcCCHHHHHHHHhhhhh-------c
Q 039362          194 NE-VTLVSVLCACAHLGALDQGRMMLRYMIDKG------LSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEK-------H  259 (440)
Q Consensus       194 ~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~------~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-------~  259 (440)
                      +. ..-......-+..|.+.++...+..+....      ...-..++..+...+...|-..+|.+++++..+       .
T Consensus       628 ~s~y~~fk~A~~ecd~GkYkeald~l~~ii~~~s~e~~~q~gLaE~~ir~akd~~~~gf~~kavd~~eksie~f~~~l~h  707 (1238)
T KOG1127|consen  628 LSKYGRFKEAVMECDNGKYKEALDALGLIIYAFSLERTGQNGLAESVIRDAKDSAITGFQKKAVDFFEKSIESFIVSLIH  707 (1238)
T ss_pred             HhHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHH
Confidence            43 222223334467889999998888875432      111223333333334444444444444443321       1


Q ss_pred             --CCchhhHHHHHHHHHhcCC--hHH----HHHHH-HHHHHcCCC--------------------ccHhhHHHHHHHHHc
Q 039362          260 --QSDVLIWNAMIGGLAMHGF--VKE----SLELF-TEMQIVGIT--------------------PDEITFLGLLSACAH  310 (440)
Q Consensus       260 --~~~~~~~~~l~~~~~~~~~--~~~----a~~~~-~~m~~~~~~--------------------p~~~~~~~l~~~~~~  310 (440)
                        ..+...|-.+..++.-.-.  ++.    ...+| .+....+.-                    .+..+|..++..|.+
T Consensus       708 ~~~~~~~~Wi~asdac~~f~q~e~~~vn~h~l~il~~q~e~~~~l~~~d~l~Lg~~c~~~hlsl~~~~~~WyNLGinylr  787 (1238)
T KOG1127|consen  708 SLQSDRLQWIVASDACYIFSQEEPSIVNMHYLIILSKQLEKTGALKKNDLLFLGYECGIAHLSLAIHMYPWYNLGINYLR  787 (1238)
T ss_pred             hhhhhHHHHHHHhHHHHHHHHhcccchHHHHHHHHHHHHHhcccCcchhHHHHHHHHhhHHHHHhhccchHHHHhHHHHH
Confidence              1122233322222111000  000    00011 111111111                    122233333333322


Q ss_pred             --------CCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcC--CCCccHhHHHHHHHHHHhcCC
Q 039362          311 --------GGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQM--PLEPTASMLGSLLTGCMNHGK  380 (440)
Q Consensus       311 --------~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~--~~~p~~~~~~~l~~~~~~~g~  380 (440)
                              ..+...|+..+...++.. ..+..+|+.|.-. ...|.+.-|.-.|-+-  ..+....+|..+...+.+..+
T Consensus       788 ~f~~l~et~~~~~~Ai~c~KkaV~L~-ann~~~WnaLGVl-sg~gnva~aQHCfIks~~sep~~~~~W~NlgvL~l~n~d  865 (1238)
T KOG1127|consen  788 YFLLLGETMKDACTAIRCCKKAVSLC-ANNEGLWNALGVL-SGIGNVACAQHCFIKSRFSEPTCHCQWLNLGVLVLENQD  865 (1238)
T ss_pred             HHHHcCCcchhHHHHHHHHHHHHHHh-hccHHHHHHHHHh-hccchhhhhhhhhhhhhhccccchhheeccceeEEeccc
Confidence                    112234555555555432 1233444444333 4445555555555443  222345667777777777778


Q ss_pred             hhHHHHHHHHHHhcCCCCCchHHHHHHHHHhccChHHHHHHHHH--HHhcCCccCCC
Q 039362          381 LDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEARTTREA--METRGVKKYPG  435 (440)
Q Consensus       381 ~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~--~~~~~~~~~~~  435 (440)
                      ++.|...|.+...++|.+...|...+......|+.-++..+|..  ....+-.+.++
T Consensus       866 ~E~A~~af~~~qSLdP~nl~~WlG~Ali~eavG~ii~~~~lfaHs~el~~~~gka~~  922 (1238)
T KOG1127|consen  866 FEHAEPAFSSVQSLDPLNLVQWLGEALIPEAVGRIIERLILFAHSDELCSKEGKAKK  922 (1238)
T ss_pred             HHHhhHHHHhhhhcCchhhHHHHHHHHhHHHHHHHHHHHHHHHhhHHhhccccccch
Confidence            88888888888888888877777777777777777777777755  33333334443

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=98.91  E-value=1.1e-06  Score=82.48  Aligned_cols=411  Identities=12%  Similarity=-0.019  Sum_probs=246.2

Q ss_pred             ChhhHHHHhhhcCCCC---hHHHHHHHHHHHccCChhhHHHHHHHHHHcCCCCCcchHHHHHHHhhchhcHHHHHHHHHH
Q 039362           12 NIDYSCKVLSHLSNPR---IFYWNTVIRGYSKSKNPNKSISLFVKMLRAGVSPDHLTYPFLAKASGRLAKRELAVAVHAQ   88 (440)
Q Consensus        12 ~~~~A~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~   88 (440)
                      +...|...|=+..+-|   ...|..|...|....+...|...|+...+.+ ..+......+...|++..+++.|..+.-.
T Consensus       473 ~~~~al~ali~alrld~~~apaf~~LG~iYrd~~Dm~RA~kCf~KAFeLD-atdaeaaaa~adtyae~~~we~a~~I~l~  551 (1238)
T KOG1127|consen  473 NSALALHALIRALRLDVSLAPAFAFLGQIYRDSDDMKRAKKCFDKAFELD-ATDAEAAAASADTYAEESTWEEAFEICLR  551 (1238)
T ss_pred             hHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC-chhhhhHHHHHHHhhccccHHHHHHHHHH
Confidence            3555555554433322   3478889988988888899999999988753 34566788889999999999999998444


Q ss_pred             HHHcCCC-CcHHHHHHHHHHHHhcCCHHHHHHHhhCCCC---CchhhHHHHHHHHHhcCChHHHHHHHhhCCCCchhh-H
Q 039362           89 IAKTGYE-SDLFISNSLIHMYGSCGDIVYAREVFDGMPT---KMSVSWNSMLDGYAKCGEMNMARQVFELMPERNVVS-W  163 (440)
Q Consensus        89 ~~~~~~~-~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~  163 (440)
                      ..+..+. .-...+....-.|...++..+|..-|+....   .|...|..+..+|..+|++..|.++|.++..-++.. |
T Consensus       552 ~~qka~a~~~k~nW~~rG~yyLea~n~h~aV~~fQsALR~dPkD~n~W~gLGeAY~~sGry~~AlKvF~kAs~LrP~s~y  631 (1238)
T KOG1127|consen  552 AAQKAPAFACKENWVQRGPYYLEAHNLHGAVCEFQSALRTDPKDYNLWLGLGEAYPESGRYSHALKVFTKASLLRPLSKY  631 (1238)
T ss_pred             HhhhchHHHHHhhhhhccccccCccchhhHHHHHHHHhcCCchhHHHHHHHHHHHHhcCceehHHHhhhhhHhcCcHhHH
Confidence            4333211 0111222244457778899999999987765   366688899999999999999999998876533322 2


Q ss_pred             H--HHHHHHHhcCCHHHHHHHHHHHHhcC------CCCCHHHHHHHHHHHHhcCChHHHHHHHH-------HHHHcCCCC
Q 039362          164 S--ALIDGYVKCGDYKEALVIFEEMRDVG------SKANEVTLVSVLCACAHLGALDQGRMMLR-------YMIDKGLSL  228 (440)
Q Consensus       164 ~--~l~~~~~~~~~~~~a~~~~~~~~~~~------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~-------~~~~~~~~~  228 (440)
                      .  ......+..|++.+++..+.......      ..--..++..+...+...|-..++..+++       -........
T Consensus       632 ~~fk~A~~ecd~GkYkeald~l~~ii~~~s~e~~~q~gLaE~~ir~akd~~~~gf~~kavd~~eksie~f~~~l~h~~~~  711 (1238)
T KOG1127|consen  632 GRFKEAVMECDNGKYKEALDALGLIIYAFSLERTGQNGLAESVIRDAKDSAITGFQKKAVDFFEKSIESFIVSLIHSLQS  711 (1238)
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHhhhh
Confidence            2  22334567899999998887764421      01111222222222333333333333333       222222222


Q ss_pred             chhhHHHHHHHH-------------------H----hcCCH---H---HHHHHHhhhhhcCCchhhHHHHHHHHHh----
Q 039362          229 TLPLQTSLIDMY-------------------A----KCGAI---K---EALIVFHGVEKHQSDVLIWNAMIGGLAM----  275 (440)
Q Consensus       229 ~~~~~~~l~~~~-------------------~----~~g~~---~---~A~~~~~~~~~~~~~~~~~~~l~~~~~~----  275 (440)
                      +...|..+..++                   .    ..+..   +   -+.+.+-.-.+...+..+|..++..|.+    
T Consensus       712 ~~~~Wi~asdac~~f~q~e~~~vn~h~l~il~~q~e~~~~l~~~d~l~Lg~~c~~~hlsl~~~~~~WyNLGinylr~f~~  791 (1238)
T KOG1127|consen  712 DRLQWIVASDACYIFSQEEPSIVNMHYLIILSKQLEKTGALKKNDLLFLGYECGIAHLSLAIHMYPWYNLGINYLRYFLL  791 (1238)
T ss_pred             hHHHHHHHhHHHHHHHHhcccchHHHHHHHHHHHHHhcccCcchhHHHHHHHHhhHHHHHhhccchHHHHhHHHHHHHHH
Confidence            222222222111                   1    11111   1   0111111111112234556556555443    


Q ss_pred             c----CChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHH
Q 039362          276 H----GFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTE  351 (440)
Q Consensus       276 ~----~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  351 (440)
                      .    .+...|+..++..++.. ..+..+|+.|.- ....|++.-+...|-+-.... +....+|..+.-.+....+++-
T Consensus       792 l~et~~~~~~Ai~c~KkaV~L~-ann~~~WnaLGV-lsg~gnva~aQHCfIks~~se-p~~~~~W~NlgvL~l~n~d~E~  868 (1238)
T KOG1127|consen  792 LGETMKDACTAIRCCKKAVSLC-ANNEGLWNALGV-LSGIGNVACAQHCFIKSRFSE-PTCHCQWLNLGVLVLENQDFEH  868 (1238)
T ss_pred             cCCcchhHHHHHHHHHHHHHHh-hccHHHHHHHHH-hhccchhhhhhhhhhhhhhcc-ccchhheeccceeEEecccHHH
Confidence            1    22346777888777653 345556666554 466678877777776655543 3356678888888999999999


Q ss_pred             HHHHHhcC-CCCccH-hHHHHHHHHHHhcCChhHHHHHHHHHHhcCCC-----CCchHHHHHHHHHhccChHHHHHHHHH
Q 039362          352 AYEFICQM-PLEPTA-SMLGSLLTGCMNHGKLDLAEIVGKKLVELQPD-----HDGRYVGLSNVYAIFKRWDEARTTREA  424 (440)
Q Consensus       352 a~~~~~~~-~~~p~~-~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~-----~~~~~~~l~~~~~~~g~~~~A~~~~~~  424 (440)
                      |...|... .+.|+. ..|..........|+.-++..+|...-+....     .-..|..........|+.++-....++
T Consensus       869 A~~af~~~qSLdP~nl~~WlG~Ali~eavG~ii~~~~lfaHs~el~~~~gka~~f~Yw~c~te~h~~Ng~~e~~I~t~~k  948 (1238)
T KOG1127|consen  869 AEPAFSSVQSLDPLNLVQWLGEALIPEAVGRIIERLILFAHSDELCSKEGKAKKFQYWLCATEIHLQNGNIEESINTARK  948 (1238)
T ss_pred             hhHHHHhhhhcCchhhHHHHHHHHhHHHHHHHHHHHHHHHhhHHhhccccccchhhHHHHHHHHHHhccchHHHHHHhhh
Confidence            99999998 667744 56766666666789888888888885444322     222345555566677887776665554


Q ss_pred             HH
Q 039362          425 ME  426 (440)
Q Consensus       425 ~~  426 (440)
                      +.
T Consensus       949 i~  950 (1238)
T KOG1127|consen  949 IS  950 (1238)
T ss_pred             hh
Confidence            43

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=98.91  E-value=3.5e-05  Score=67.91  Aligned_cols=396  Identities=9%  Similarity=0.067  Sum_probs=225.8

Q ss_pred             CCChHHHHHHHHHHHccCChhhHHHHHHHHHHcCCCCCcchHHHHHHHhhchhcHHHHHHHHHHHHHcCCCCcHHHHHHH
Q 039362           25 NPRIFYWNTVIRGYSKSKNPNKSISLFVKMLRAGVSPDHLTYPFLAKASGRLAKRELAVAVHAQIAKTGYESDLFISNSL  104 (440)
Q Consensus        25 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  104 (440)
                      +-|+.+|+.||+-+... ..+++.+.++++... .+-.+..|..-|..-...++++.+.++|.+.+....  +...|...
T Consensus        17 P~di~sw~~lire~qt~-~~~~~R~~YEq~~~~-FP~s~r~W~~yi~~El~skdfe~VEkLF~RCLvkvL--nlDLW~lY   92 (656)
T KOG1914|consen   17 PYDIDSWSQLIREAQTQ-PIDKVRETYEQLVNV-FPSSPRAWKLYIERELASKDFESVEKLFSRCLVKVL--NLDLWKLY   92 (656)
T ss_pred             CccHHHHHHHHHHHccC-CHHHHHHHHHHHhcc-CCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHh--hHhHHHHH
Confidence            56889999999977666 999999999999874 344577899999999999999999999999987643  46666666


Q ss_pred             HHHHHh-cCCHHHH----HHHhhCCC------CCchhhHHHHHHH---------HHhcCChHHHHHHHhhCCC-C-----
Q 039362          105 IHMYGS-CGDIVYA----REVFDGMP------TKMSVSWNSMLDG---------YAKCGEMNMARQVFELMPE-R-----  158 (440)
Q Consensus       105 ~~~~~~-~g~~~~a----~~~~~~~~------~~~~~~~~~l~~~---------~~~~~~~~~a~~~~~~~~~-~-----  158 (440)
                      ++.-.+ .|+...+    .+.|+-..      -.+...|+..+.-         +..+.+++..++++.++.. |     
T Consensus        93 l~YVR~~~~~~~~~r~~m~qAy~f~l~kig~di~s~siW~eYi~FL~~vea~gk~ee~QRI~~vRriYqral~tPm~nlE  172 (656)
T KOG1914|consen   93 LSYVRETKGKLFGYREKMVQAYDFALEKIGMDIKSYSIWDEYINFLEGVEAVGKYEENQRITAVRRIYQRALVTPMHNLE  172 (656)
T ss_pred             HHHHHHHccCcchHHHHHHHHHHHHHHHhccCcccchhHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHhcCccccHH
Confidence            653332 2333332    22222111      1233345544433         3555677888888988764 1     


Q ss_pred             ----chhhHHHHHHHH-------HhcCCHHHHHHHHHHHHh--cCCCCCHHH---------------HHHHHHHHHhcCC
Q 039362          159 ----NVVSWSALIDGY-------VKCGDYKEALVIFEEMRD--VGSKANEVT---------------LVSVLCACAHLGA  210 (440)
Q Consensus       159 ----~~~~~~~l~~~~-------~~~~~~~~a~~~~~~~~~--~~~~~~~~~---------------~~~l~~~~~~~~~  210 (440)
                          |-..|..=++..       -+...+-.|.++++++..  .|......+               +..+|. +-+.+-
T Consensus       173 kLW~DY~~fE~~IN~~tarK~i~e~s~~Ym~AR~~~qel~~lt~GL~r~~~~vp~~~T~~e~~qv~~W~n~I~-wEksNp  251 (656)
T KOG1914|consen  173 KLWKDYEAFEQEINIITARKFIGERSPEYMNARRVYQELQNLTRGLNRNAPAVPPKGTKDEIQQVELWKNWIK-WEKSNP  251 (656)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHHHHHhhhcccCCCCCCCCChHHHHHHHHHHHHHH-HHhcCC
Confidence                222332222211       123356667777776632  232211111               222222 111111


Q ss_pred             h---------HHHHHHHHHHHH-cCCCCchhhHHHH-------HHHHHhcCC-------HHHHHHHHhhhhhc--CCchh
Q 039362          211 L---------DQGRMMLRYMID-KGLSLTLPLQTSL-------IDMYAKCGA-------IKEALIVFHGVEKH--QSDVL  264 (440)
Q Consensus       211 ~---------~~a~~~~~~~~~-~~~~~~~~~~~~l-------~~~~~~~g~-------~~~A~~~~~~~~~~--~~~~~  264 (440)
                      +         ....-++++.+. .+..|  .+|--.       ...+...|+       .+++..+++.....  ..+..
T Consensus       252 L~t~~~~~~~~Rv~yayeQ~ll~l~~~p--eiWy~~s~yl~~~s~l~~~~~d~~~a~~~t~e~~~~yEr~I~~l~~~~~~  329 (656)
T KOG1914|consen  252 LRTLDGTMLTRRVMYAYEQCLLYLGYHP--EIWYDYSMYLIEISDLLTEKGDVPDAKSLTDEAASIYERAIEGLLKENKL  329 (656)
T ss_pred             cccccccHHHHHHHHHHHHHHHHHhcCH--HHHHHHHHHHHHhhHHHHHhcccccchhhHHHHHHHHHHHHHHHHHHHHH
Confidence            1         111122222221 12222  222111       122333333       33444555544322  12223


Q ss_pred             hHHHHHHHHHhc---CChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHhhcCCCC-CcchHHHHH
Q 039362          265 IWNAMIGGLAMH---GFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVP-KSEHYACMV  340 (440)
Q Consensus       265 ~~~~l~~~~~~~---~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~  340 (440)
                      +|..+...--..   ...+....+++++...-..--..+|..++..-.+..-.+.|..+|.++.+.+..+ ++.++++++
T Consensus       330 Ly~~~a~~eE~~~~~n~~~~~~~~~~~ll~~~~~~~tLv~~~~mn~irR~eGlkaaR~iF~kaR~~~r~~hhVfVa~A~m  409 (656)
T KOG1914|consen  330 LYFALADYEESRYDDNKEKKVHEIYNKLLKIEDIDLTLVYCQYMNFIRRAEGLKAARKIFKKAREDKRTRHHVFVAAALM  409 (656)
T ss_pred             HHHHHHhhHHHhcccchhhhhHHHHHHHHhhhccCCceehhHHHHHHHHhhhHHHHHHHHHHHhhccCCcchhhHHHHHH
Confidence            333332211111   1245556666665543222223467777777777788888888888888876666 566667777


Q ss_pred             HHHHhcCCHHHHHHHHhcC-CCCccH-hHHHHHHHHHHhcCChhHHHHHHHHHHhcC-CC--CCchHHHHHHHHHhccCh
Q 039362          341 DALSRAGQVTEAYEFICQM-PLEPTA-SMLGSLLTGCMNHGKLDLAEIVGKKLVELQ-PD--HDGRYVGLSNVYAIFKRW  415 (440)
Q Consensus       341 ~~~~~~~~~~~a~~~~~~~-~~~p~~-~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~-~~--~~~~~~~l~~~~~~~g~~  415 (440)
                      ..|+ .++.+-|.++|+-- ..-+|. .-....+..+...++-..+..+|++++... +.  ...+|..++.--..-|+.
T Consensus       410 Ey~c-skD~~~AfrIFeLGLkkf~d~p~yv~~YldfL~~lNdd~N~R~LFEr~l~s~l~~~ks~~Iw~r~l~yES~vGdL  488 (656)
T KOG1914|consen  410 EYYC-SKDKETAFRIFELGLKKFGDSPEYVLKYLDFLSHLNDDNNARALFERVLTSVLSADKSKEIWDRMLEYESNVGDL  488 (656)
T ss_pred             HHHh-cCChhHHHHHHHHHHHhcCCChHHHHHHHHHHHHhCcchhHHHHHHHHHhccCChhhhHHHHHHHHHHHHhcccH
Confidence            6554 56778888888765 333333 444566677778888888888888888773 21  224788888888888888


Q ss_pred             HHHHHHHHHHHhc
Q 039362          416 DEARTTREAMETR  428 (440)
Q Consensus       416 ~~A~~~~~~~~~~  428 (440)
                      ..+.++-+++...
T Consensus       489 ~si~~lekR~~~a  501 (656)
T KOG1914|consen  489 NSILKLEKRRFTA  501 (656)
T ss_pred             HHHHHHHHHHHHh
Confidence            8888887776554

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.89  E-value=1.7e-05  Score=75.01  Aligned_cols=341  Identities=15%  Similarity=0.115  Sum_probs=251.3

Q ss_pred             CChHHHHHHHHHHHccCChhhHHHHHHHHHHcCC--CCCcchHHHHHHHhhchhcHHHHHHHHHHHHHcCCCCcHHHHHH
Q 039362           26 PRIFYWNTVIRGYSKSKNPNKSISLFVKMLRAGV--SPDHLTYPFLAKASGRLAKRELAVAVHAQIAKTGYESDLFISNS  103 (440)
Q Consensus        26 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  103 (440)
                      .|+..-..-..++...+-+.+-++++++..-...  .-+...-+.|+-. +-.-+..++.+..+++-..+. |+      
T Consensus       982 ~dPe~vS~tVkAfMtadLp~eLIELLEKIvL~~S~Fse~~nLQnLLiLt-Aikad~trVm~YI~rLdnyDa-~~------ 1053 (1666)
T KOG0985|consen  982 QDPEEVSVTVKAFMTADLPNELIELLEKIVLDNSVFSENRNLQNLLILT-AIKADRTRVMEYINRLDNYDA-PD------ 1053 (1666)
T ss_pred             CChHHHHHHHHHHHhcCCcHHHHHHHHHHhcCCcccccchhhhhhHHHH-HhhcChHHHHHHHHHhccCCc-hh------
Confidence            4455555667889999999999999999864321  1122223444433 334566777888877755432 22      


Q ss_pred             HHHHHHhcCCHHHHHHHhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHhhCCCCchhhHHHHHHHHHhcCCHHHHHHHH
Q 039362          104 LIHMYGSCGDIVYAREVFDGMPTKMSVSWNSMLDGYAKCGEMNMARQVFELMPERNVVSWSALIDGYVKCGDYKEALVIF  183 (440)
Q Consensus       104 l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  183 (440)
                      +...+...+-+++|..+|++..- +....+.|+.   .-+.++.|.+.-++..+  +..|+.+..+-.+.|...+|++-|
T Consensus      1054 ia~iai~~~LyEEAF~ifkkf~~-n~~A~~VLie---~i~~ldRA~efAe~~n~--p~vWsqlakAQL~~~~v~dAieSy 1127 (1666)
T KOG0985|consen 1054 IAEIAIENQLYEEAFAIFKKFDM-NVSAIQVLIE---NIGSLDRAYEFAERCNE--PAVWSQLAKAQLQGGLVKDAIESY 1127 (1666)
T ss_pred             HHHHHhhhhHHHHHHHHHHHhcc-cHHHHHHHHH---HhhhHHHHHHHHHhhCC--hHHHHHHHHHHHhcCchHHHHHHH
Confidence            34456677889999999987643 2333333333   45678888888777764  567999999999999999998877


Q ss_pred             HHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCCch
Q 039362          184 EEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQSDV  263 (440)
Q Consensus       184 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~  263 (440)
                      -+.      -|+..|..++....+.|.+++-.+++....+..-.|..  -..|+-+|++.++..+-.+++.     .||.
T Consensus      1128 ika------dDps~y~eVi~~a~~~~~~edLv~yL~MaRkk~~E~~i--d~eLi~AyAkt~rl~elE~fi~-----gpN~ 1194 (1666)
T KOG0985|consen 1128 IKA------DDPSNYLEVIDVASRTGKYEDLVKYLLMARKKVREPYI--DSELIFAYAKTNRLTELEEFIA-----GPNV 1194 (1666)
T ss_pred             Hhc------CCcHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhcCccc--hHHHHHHHHHhchHHHHHHHhc-----CCCc
Confidence            542      35678999999999999999999999888877655543  4678999999999888776653     7888


Q ss_pred             hhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHH
Q 039362          264 LIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDAL  343 (440)
Q Consensus       264 ~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  343 (440)
                      .....+..-|...|.++.|.-++...         ..|..|...+...|+++.|...-+++      .+..+|..+-.+|
T Consensus      1195 A~i~~vGdrcf~~~~y~aAkl~y~~v---------SN~a~La~TLV~LgeyQ~AVD~aRKA------ns~ktWK~VcfaC 1259 (1666)
T KOG0985|consen 1195 ANIQQVGDRCFEEKMYEAAKLLYSNV---------SNFAKLASTLVYLGEYQGAVDAARKA------NSTKTWKEVCFAC 1259 (1666)
T ss_pred             hhHHHHhHHHhhhhhhHHHHHHHHHh---------hhHHHHHHHHHHHHHHHHHHHHhhhc------cchhHHHHHHHHH
Confidence            88888889999999999888777643         34677777778888888887654433      3667899888888


Q ss_pred             HhcCCHHHHHHHHhcCCC--CccHhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCCchHHHHHHHHHhc
Q 039362          344 SRAGQVTEAYEFICQMPL--EPTASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIF  412 (440)
Q Consensus       344 ~~~~~~~~a~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~  412 (440)
                      ...+.+.-|.    -.|+  -....-+..++.-|...|-+++.+.+++..+.+...+...|+.++..|.+-
T Consensus      1260 vd~~EFrlAQ----iCGL~iivhadeLeeli~~Yq~rGyFeElIsl~Ea~LGLERAHMgmfTELaiLYsky 1326 (1666)
T KOG0985|consen 1260 VDKEEFRLAQ----ICGLNIIVHADELEELIEYYQDRGYFEELISLLEAGLGLERAHMGMFTELAILYSKY 1326 (1666)
T ss_pred             hchhhhhHHH----hcCceEEEehHhHHHHHHHHHhcCcHHHHHHHHHhhhchhHHHHHHHHHHHHHHHhc
Confidence            8877665432    2243  335566788999999999999999999999988888888999999888765

>PLN02789 farnesyltranstransferase

Probab=98.89  E-value=4.9e-06  Score=71.51  Aligned_cols=231  Identities=10%  Similarity=0.011  Sum_probs=112.7

Q ss_pred             HHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcC-ChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCH-
Q 039362          169 GYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLG-ALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAI-  246 (440)
Q Consensus       169 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~-  246 (440)
                      .+...++.++|+.++.+++... +-+...+..-..++...| ++++++..++.+.+.+ +.+..+|..-..++.+.|+. 
T Consensus        46 ~l~~~e~serAL~lt~~aI~ln-P~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~n-pknyqaW~~R~~~l~~l~~~~  123 (320)
T PLN02789         46 VYASDERSPRALDLTADVIRLN-PGNYTVWHFRRLCLEALDADLEEELDFAEDVAEDN-PKNYQIWHHRRWLAEKLGPDA  123 (320)
T ss_pred             HHHcCCCCHHHHHHHHHHHHHC-chhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHC-CcchHHhHHHHHHHHHcCchh
Confidence            3444455556666655555442 112223333333333444 3456666666655554 44444454444444444432 


Q ss_pred             -HHHHHHHhhhhhcCC-chhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcC---CC----hHHH
Q 039362          247 -KEALIVFHGVEKHQS-DVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHG---GL----VMEA  317 (440)
Q Consensus       247 -~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~---~~----~~~a  317 (440)
                       ++++.+++++.+..| +..+|+...-.+...|+++++++.+.++.+.+ +.|...|+.....+.+.   |.    .++.
T Consensus       124 ~~~el~~~~kal~~dpkNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d-~~N~sAW~~R~~vl~~~~~l~~~~~~~e~e  202 (320)
T PLN02789        124 ANKELEFTRKILSLDAKNYHAWSHRQWVLRTLGGWEDELEYCHQLLEED-VRNNSAWNQRYFVITRSPLLGGLEAMRDSE  202 (320)
T ss_pred             hHHHHHHHHHHHHhCcccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHC-CCchhHHHHHHHHHHhccccccccccHHHH
Confidence             445555555554443 45556655555556666666666666666554 22333444443333332   11    1344


Q ss_pred             HHHHHHHhhcCCCCCcchHHHHHHHHHhc----CCHHHHHHHHhcC-CCCc-cHhHHHHHHHHHHhcC------------
Q 039362          318 WYFFKSLGKRGMVPKSEHYACMVDALSRA----GQVTEAYEFICQM-PLEP-TASMLGSLLTGCMNHG------------  379 (440)
Q Consensus       318 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~g------------  379 (440)
                      ..+..+++... +-+...|+.+...+...    ++..+|.+++.+. ...| +...+..|+..|....            
T Consensus       203 l~y~~~aI~~~-P~N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~~~~~s~~al~~l~d~~~~~~~~~~~~~~~~~~  281 (320)
T PLN02789        203 LKYTIDAILAN-PRNESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLSKDSNHVFALSDLLDLLCEGLQPTAEFRDTVDT  281 (320)
T ss_pred             HHHHHHHHHhC-CCCcCHHHHHHHHHhcCCcccccchhHHHHHHHhhcccCCcHHHHHHHHHHHHhhhccchhhhhhhhc
Confidence            55554555432 12455566555555552    2334565555554 3233 3344455555554321            


Q ss_pred             ------ChhHHHHHHHHHHhcCCCCCchHH
Q 039362          380 ------KLDLAEIVGKKLVELQPDHDGRYV  403 (440)
Q Consensus       380 ------~~~~a~~~~~~~~~~~~~~~~~~~  403 (440)
                            ..++|..+++.+.+.+|-....|.
T Consensus       282 ~~~~~~~~~~a~~~~~~l~~~d~ir~~yw~  311 (320)
T PLN02789        282 LAEELSDSTLAQAVCSELEVADPMRRNYWA  311 (320)
T ss_pred             cccccccHHHHHHHHHHHHhhCcHHHHHHH
Confidence                  336677777777555555444443

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.88  E-value=4.2e-07  Score=75.73  Aligned_cols=183  Identities=15%  Similarity=0.060  Sum_probs=130.6

Q ss_pred             CCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCch---hhHHHHHHHHHhcCCHHHHHHHHhhhhhcCCchh----h
Q 039362          193 ANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTL---PLQTSLIDMYAKCGAIKEALIVFHGVEKHQSDVL----I  265 (440)
Q Consensus       193 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~----~  265 (440)
                      .....+......+...|+++.|...++++.+.. +.+.   ..+..+..++...|++++|...++++.+..|+..    .
T Consensus        31 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a  109 (235)
T TIGR03302        31 WPAEELYEEAKEALDSGDYTEAIKYFEALESRY-PFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPNHPDADYA  109 (235)
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCchHHH
Confidence            345677778888999999999999999998765 3332   4667889999999999999999999988776433    3


Q ss_pred             HHHHHHHHHhc--------CChHHHHHHHHHHHHcCCCccHh-hHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCCcchH
Q 039362          266 WNAMIGGLAMH--------GFVKESLELFTEMQIVGITPDEI-TFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHY  336 (440)
Q Consensus       266 ~~~l~~~~~~~--------~~~~~a~~~~~~m~~~~~~p~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  336 (440)
                      +..+..++...        |++++|.+.++.+...  .|+.. ....+.... .   ..      ....        ...
T Consensus       110 ~~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~p~~~~~~~a~~~~~-~---~~------~~~~--------~~~  169 (235)
T TIGR03302       110 YYLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRR--YPNSEYAPDAKKRMD-Y---LR------NRLA--------GKE  169 (235)
T ss_pred             HHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHH--CCCChhHHHHHHHHH-H---HH------HHHH--------HHH
Confidence            55555666654        7889999999999876  44432 222221110 0   00      0000        011


Q ss_pred             HHHHHHHHhcCCHHHHHHHHhcC-CCCc----cHhHHHHHHHHHHhcCChhHHHHHHHHHHhcCC
Q 039362          337 ACMVDALSRAGQVTEAYEFICQM-PLEP----TASMLGSLLTGCMNHGKLDLAEIVGKKLVELQP  396 (440)
Q Consensus       337 ~~l~~~~~~~~~~~~a~~~~~~~-~~~p----~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  396 (440)
                      ..+...|.+.|++++|...+++. ...|    ....+..++.++...|++++|..+++.+....|
T Consensus       170 ~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~~~  234 (235)
T TIGR03302       170 LYVARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGANYP  234 (235)
T ss_pred             HHHHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC
Confidence            24667788999999999999887 3223    346788889999999999999999888877655

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).

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

Probab=98.87  E-value=1.7e-06  Score=68.96  Aligned_cols=157  Identities=19%  Similarity=0.200  Sum_probs=74.9

Q ss_pred             HHHHHHHhcCCHHHHHHHHhhhhhcCCchhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHc----
Q 039362          235 SLIDMYAKCGAIKEALIVFHGVEKHQSDVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAH----  310 (440)
Q Consensus       235 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~----  310 (440)
                      .-+..|+..|++++|++..+...    +....-.=...+.+..+++-|.+.+++|.+-   .+..|.+.|..++.+    
T Consensus       113 ~aa~i~~~~~~~deAl~~~~~~~----~lE~~Al~VqI~lk~~r~d~A~~~lk~mq~i---ded~tLtQLA~awv~la~g  185 (299)
T KOG3081|consen  113 LAAIIYMHDGDFDEALKALHLGE----NLEAAALNVQILLKMHRFDLAEKELKKMQQI---DEDATLTQLAQAWVKLATG  185 (299)
T ss_pred             HhhHHhhcCCChHHHHHHHhccc----hHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc---chHHHHHHHHHHHHHHhcc
Confidence            33445555566666665555422    1112222223334445555566666665542   234455545444432    


Q ss_pred             CCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcC--CCCccHhHHHHHHHHHHhcCCh-hHHHHH
Q 039362          311 GGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQM--PLEPTASMLGSLLTGCMNHGKL-DLAEIV  387 (440)
Q Consensus       311 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~--~~~p~~~~~~~l~~~~~~~g~~-~~a~~~  387 (440)
                      .+....|.-+|+++.++ ..|+..+.+....++...|++++|..++++.  +-..++.++..++......|.. +-..+.
T Consensus       186 gek~qdAfyifeE~s~k-~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd~~dpetL~Nliv~a~~~Gkd~~~~~r~  264 (299)
T KOG3081|consen  186 GEKIQDAFYIFEELSEK-TPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKDAKDPETLANLIVLALHLGKDAEVTERN  264 (299)
T ss_pred             chhhhhHHHHHHHHhcc-cCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHhCCChHHHHHH
Confidence            23455555555555542 3455555555555555555666665555555  2223444444444444444433 223344


Q ss_pred             HHHHHhcCCCCC
Q 039362          388 GKKLVELQPDHD  399 (440)
Q Consensus       388 ~~~~~~~~~~~~  399 (440)
                      +.++....|..+
T Consensus       265 l~QLk~~~p~h~  276 (299)
T KOG3081|consen  265 LSQLKLSHPEHP  276 (299)
T ss_pred             HHHHHhcCCcch
Confidence            455554555443

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

Probab=98.86  E-value=3.7e-07  Score=82.69  Aligned_cols=236  Identities=14%  Similarity=0.064  Sum_probs=181.5

Q ss_pred             CCcHHHHHHHHHHHHhcCCHHHHHHHhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHhhCCC--CchhhHHHHHHHHHh
Q 039362           95 ESDLFISNSLIHMYGSCGDIVYAREVFDGMPTKMSVSWNSMLDGYAKCGEMNMARQVFELMPE--RNVVSWSALIDGYVK  172 (440)
Q Consensus        95 ~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~l~~~~~~  172 (440)
                      +|--..-..+...+...|-...|..+|+++     ..|...+.+|+..|+..+|..+..+..+  |+...|..+.+....
T Consensus       395 pp~Wq~q~~laell~slGitksAl~I~Erl-----emw~~vi~CY~~lg~~~kaeei~~q~lek~~d~~lyc~LGDv~~d  469 (777)
T KOG1128|consen  395 PPIWQLQRLLAELLLSLGITKSALVIFERL-----EMWDPVILCYLLLGQHGKAEEINRQELEKDPDPRLYCLLGDVLHD  469 (777)
T ss_pred             CCcchHHHHHHHHHHHcchHHHHHHHHHhH-----HHHHHHHHHHHHhcccchHHHHHHHHhcCCCcchhHHHhhhhccC
Confidence            344445566778888999999999999876     3577788899999999999988877654  677888888888777


Q ss_pred             cCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHH
Q 039362          173 CGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIV  252 (440)
Q Consensus       173 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  252 (440)
                      ..-+++|.++.+.....       .-..+.....+.+++.++.+.++.-.+.+ +.-..+|-.+..+..+.++++.|.+.
T Consensus       470 ~s~yEkawElsn~~sar-------A~r~~~~~~~~~~~fs~~~~hle~sl~~n-plq~~~wf~~G~~ALqlek~q~av~a  541 (777)
T KOG1128|consen  470 PSLYEKAWELSNYISAR-------AQRSLALLILSNKDFSEADKHLERSLEIN-PLQLGTWFGLGCAALQLEKEQAAVKA  541 (777)
T ss_pred             hHHHHHHHHHhhhhhHH-------HHHhhccccccchhHHHHHHHHHHHhhcC-ccchhHHHhccHHHHHHhhhHHHHHH
Confidence            77788888887764322       11222223345789999999999888877 67788888899999999999999999


Q ss_pred             HhhhhhcCCc-hhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHhhcC-CC
Q 039362          253 FHGVEKHQSD-VLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKRG-MV  330 (440)
Q Consensus       253 ~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~  330 (440)
                      |.......|| ...||.+-.+|.+.++-.+|...+++..+.+ .-+...|...+....+.|.+++|++.+.++.... ..
T Consensus       542 F~rcvtL~Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn-~~~w~iWENymlvsvdvge~eda~~A~~rll~~~~~~  620 (777)
T KOG1128|consen  542 FHRCVTLEPDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCN-YQHWQIWENYMLVSVDVGEFEDAIKAYHRLLDLRKKY  620 (777)
T ss_pred             HHHHhhcCCCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcC-CCCCeeeechhhhhhhcccHHHHHHHHHHHHHhhhhc
Confidence            9999888885 6789999999999999999999999998877 4444566666667788999999999999887761 12


Q ss_pred             CCcchHHHHHHHHH
Q 039362          331 PKSEHYACMVDALS  344 (440)
Q Consensus       331 ~~~~~~~~l~~~~~  344 (440)
                      .|..+...++....
T Consensus       621 ~d~~vl~~iv~~~~  634 (777)
T KOG1128|consen  621 KDDEVLLIIVRTVL  634 (777)
T ss_pred             ccchhhHHHHHHHH
Confidence            25555555554443

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.85  E-value=8.7e-08  Score=72.36  Aligned_cols=105  Identities=12%  Similarity=-0.090  Sum_probs=56.7

Q ss_pred             HHHHHHHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcC-CCCc-cHhHHHHHHHHHHhcCC
Q 039362          303 GLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQM-PLEP-TASMLGSLLTGCMNHGK  380 (440)
Q Consensus       303 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~  380 (440)
                      .+...+...|++++|...|+.+.... +.+...+..+..++...|++++|...|++. ...| +...+..+..++...|+
T Consensus        29 ~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~p~~~~a~~~lg~~l~~~g~  107 (144)
T PRK15359         29 ASGYASWQEGDYSRAVIDFSWLVMAQ-PWSWRAHIALAGTWMMLKEYTTAINFYGHALMLDASHPEPVYQTGVCLKMMGE  107 (144)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHcCC
Confidence            34445555566666666666555532 124444555555555566666666665555 3333 33455555555555566


Q ss_pred             hhHHHHHHHHHHhcCCCCCchHHHHHHH
Q 039362          381 LDLAEIVGKKLVELQPDHDGRYVGLSNV  408 (440)
Q Consensus       381 ~~~a~~~~~~~~~~~~~~~~~~~~l~~~  408 (440)
                      +++|+..|+++++..|.++..+...+.+
T Consensus       108 ~~eAi~~~~~Al~~~p~~~~~~~~~~~~  135 (144)
T PRK15359        108 PGLAREAFQTAIKMSYADASWSEIRQNA  135 (144)
T ss_pred             HHHHHHHHHHHHHhCCCChHHHHHHHHH
Confidence            6666666666666555555555444443

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

Probab=98.84  E-value=6.2e-07  Score=71.44  Aligned_cols=163  Identities=14%  Similarity=0.052  Sum_probs=117.9

Q ss_pred             CCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhcC-CchhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHH
Q 039362          227 SLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQ-SDVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLL  305 (440)
Q Consensus       227 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~  305 (440)
                      +.|..+ ..+...+...|+-+....+........ .+.......+....+.|++..|+..+.+..... ++|...|+.+.
T Consensus        64 p~d~~i-~~~a~a~~~~G~a~~~l~~~~~~~~~~~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l~-p~d~~~~~~lg  141 (257)
T COG5010          64 PEDLSI-AKLATALYLRGDADSSLAVLQKSAIAYPKDRELLAAQGKNQIRNGNFGEAVSVLRKAARLA-PTDWEAWNLLG  141 (257)
T ss_pred             cchHHH-HHHHHHHHhcccccchHHHHhhhhccCcccHHHHHHHHHHHHHhcchHHHHHHHHHHhccC-CCChhhhhHHH
Confidence            334444 666677777787777777777754333 355566667888888888888888888887654 77778888888


Q ss_pred             HHHHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcCCCC--ccHhHHHHHHHHHHhcCChhH
Q 039362          306 SACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQMPLE--PTASMLGSLLTGCMNHGKLDL  383 (440)
Q Consensus       306 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--p~~~~~~~l~~~~~~~g~~~~  383 (440)
                      -+|.+.|+.+.|..-|.+..+... -+...++.+.-.|.-.|+++.|..++...-..  -|..+-..+.......|++++
T Consensus       142 aaldq~Gr~~~Ar~ay~qAl~L~~-~~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~~ad~~v~~NLAl~~~~~g~~~~  220 (257)
T COG5010         142 AALDQLGRFDEARRAYRQALELAP-NEPSIANNLGMSLLLRGDLEDAETLLLPAYLSPAADSRVRQNLALVVGLQGDFRE  220 (257)
T ss_pred             HHHHHccChhHHHHHHHHHHHhcc-CCchhhhhHHHHHHHcCCHHHHHHHHHHHHhCCCCchHHHHHHHHHHhhcCChHH
Confidence            888888888888888888887521 24556777777788888888888888877222  255666777777778888888


Q ss_pred             HHHHHHHHH
Q 039362          384 AEIVGKKLV  392 (440)
Q Consensus       384 a~~~~~~~~  392 (440)
                      |..+..+-.
T Consensus       221 A~~i~~~e~  229 (257)
T COG5010         221 AEDIAVQEL  229 (257)
T ss_pred             HHhhccccc
Confidence            877766543

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

Probab=98.84  E-value=6.5e-07  Score=71.52  Aligned_cols=118  Identities=11%  Similarity=0.065  Sum_probs=68.0

Q ss_pred             cCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCC-chhhHHHHHHHH-HhcCC--hHHHH
Q 039362          208 LGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQS-DVLIWNAMIGGL-AMHGF--VKESL  283 (440)
Q Consensus       208 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~-~~~~~--~~~a~  283 (440)
                      .++.+++...++..++.+ +.+...|..+...|...|++++|...|++.....| +...+..+..++ ...|+  .++|.
T Consensus        52 ~~~~~~~i~~l~~~L~~~-P~~~~~w~~Lg~~~~~~g~~~~A~~a~~~Al~l~P~~~~~~~~lA~aL~~~~g~~~~~~A~  130 (198)
T PRK10370         52 QQTPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWRNDYDNALLAYRQALQLRGENAELYAALATVLYYQAGQHMTPQTR  130 (198)
T ss_pred             chhHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCCCCcHHHH
Confidence            444455555555555554 55566666666666666666666666666665544 344555555542 44454  36666


Q ss_pred             HHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHhhc
Q 039362          284 ELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKR  327 (440)
Q Consensus       284 ~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  327 (440)
                      +++++..+.+ +.+...+..+...+...|++++|+..|+++.+.
T Consensus       131 ~~l~~al~~d-P~~~~al~~LA~~~~~~g~~~~Ai~~~~~aL~l  173 (198)
T PRK10370        131 EMIDKALALD-ANEVTALMLLASDAFMQADYAQAIELWQKVLDL  173 (198)
T ss_pred             HHHHHHHHhC-CCChhHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            6666666553 334455555666666666666666666666654

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

Probab=98.83  E-value=2.8e-06  Score=81.49  Aligned_cols=235  Identities=9%  Similarity=0.021  Sum_probs=145.8

Q ss_pred             chhhHHHHHHHHHhcCChHHHHHHHhhCCC--Cc-hhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHH
Q 039362          128 MSVSWNSMLDGYAKCGEMNMARQVFELMPE--RN-VVSWSALIDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCA  204 (440)
Q Consensus       128 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  204 (440)
                      +...+..|+..+...+++++|.++.+...+  |+ ...|..+...+.+.++..++.-+  .               ++..
T Consensus        30 n~~a~~~Li~~~~~~~~~deai~i~~~~l~~~P~~i~~yy~~G~l~~q~~~~~~~~lv--~---------------~l~~   92 (906)
T PRK14720         30 KFKELDDLIDAYKSENLTDEAKDICEEHLKEHKKSISALYISGILSLSRRPLNDSNLL--N---------------LIDS   92 (906)
T ss_pred             hHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCcceehHHHHHHHHHhhcchhhhhhh--h---------------hhhh
Confidence            445667777777777777777777765543  32 23344444455555554444333  2               2222


Q ss_pred             HHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCC-chhhHHHHHHHHHhcCChHHHH
Q 039362          205 CAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQS-DVLIWNAMIGGLAMHGFVKESL  283 (440)
Q Consensus       205 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~  283 (440)
                      .....++.-...+...+.+.  ..+...+..++.+|-+.|+.++|..+|+++.+..| |+...|.+.-.|... +.++|.
T Consensus        93 ~~~~~~~~~ve~~~~~i~~~--~~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D~~n~~aLNn~AY~~ae~-dL~KA~  169 (906)
T PRK14720         93 FSQNLKWAIVEHICDKILLY--GENKLALRTLAEAYAKLNENKKLKGVWERLVKADRDNPEIVKKLATSYEEE-DKEKAI  169 (906)
T ss_pred             cccccchhHHHHHHHHHHhh--hhhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcCcccHHHHHHHHHHHHHh-hHHHHH
Confidence            22333343333444444442  33344667788888888888888888888887766 567777787777777 888888


Q ss_pred             HHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcCCCCc
Q 039362          284 ELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQMPLEP  363 (440)
Q Consensus       284 ~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~p  363 (440)
                      +++.+....               +...+++..+.++|.++..... .+...+..+.+.....            .+..-
T Consensus       170 ~m~~KAV~~---------------~i~~kq~~~~~e~W~k~~~~~~-~d~d~f~~i~~ki~~~------------~~~~~  221 (906)
T PRK14720        170 TYLKKAIYR---------------FIKKKQYVGIEEIWSKLVHYNS-DDFDFFLRIERKVLGH------------REFTR  221 (906)
T ss_pred             HHHHHHHHH---------------HHhhhcchHHHHHHHHHHhcCc-ccchHHHHHHHHHHhh------------hccch
Confidence            887776653               4455677777777877777431 1222332222222211            11222


Q ss_pred             cHhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCCchHHHHHHHHH
Q 039362          364 TASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYA  410 (440)
Q Consensus       364 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~  410 (440)
                      -..++..+...|...+++++++.+++.+++.+|.|..+...++.+|.
T Consensus       222 ~~~~~~~l~~~y~~~~~~~~~i~iLK~iL~~~~~n~~a~~~l~~~y~  268 (906)
T PRK14720        222 LVGLLEDLYEPYKALEDWDEVIYILKKILEHDNKNNKAREELIRFYK  268 (906)
T ss_pred             hHHHHHHHHHHHhhhhhhhHHHHHHHHHHhcCCcchhhHHHHHHHHH
Confidence            34555566677778888999999999999999888888888888876

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

Probab=98.83  E-value=2.2e-06  Score=83.23  Aligned_cols=165  Identities=13%  Similarity=0.047  Sum_probs=72.9

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHh
Q 039362          163 WSALIDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAK  242 (440)
Q Consensus       163 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  242 (440)
                      |.++++.-..-|.-+...++|+++.+..  -.-..|..|...|.+.+.+++|.++++.|.+.- .....+|..++..+.+
T Consensus      1500 WiA~lNlEn~yG~eesl~kVFeRAcqyc--d~~~V~~~L~~iy~k~ek~~~A~ell~~m~KKF-~q~~~vW~~y~~fLl~ 1576 (1710)
T KOG1070|consen 1500 WIAYLNLENAYGTEESLKKVFERACQYC--DAYTVHLKLLGIYEKSEKNDEADELLRLMLKKF-GQTRKVWIMYADFLLR 1576 (1710)
T ss_pred             HHHHHhHHHhhCcHHHHHHHHHHHHHhc--chHHHHHHHHHHHHHhhcchhHHHHHHHHHHHh-cchhhHHHHHHHHHhc
Confidence            4444444444444444444444444321  112233444444445555555555555544432 2344444445555555


Q ss_pred             cCCHHHHHHHHhhhhhcCC---chhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHH
Q 039362          243 CGAIKEALIVFHGVEKHQS---DVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWY  319 (440)
Q Consensus       243 ~g~~~~A~~~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~  319 (440)
                      .++-+.|..++.++.+.-|   .+......+..-.+.|+.+++..+|+...... +-....|+..++.-.++|+.+.+..
T Consensus      1577 ~ne~~aa~~lL~rAL~~lPk~eHv~~IskfAqLEFk~GDaeRGRtlfEgll~ay-PKRtDlW~VYid~eik~~~~~~vR~ 1655 (1710)
T KOG1070|consen 1577 QNEAEAARELLKRALKSLPKQEHVEFISKFAQLEFKYGDAERGRTLFEGLLSAY-PKRTDLWSVYIDMEIKHGDIKYVRD 1655 (1710)
T ss_pred             ccHHHHHHHHHHHHHhhcchhhhHHHHHHHHHHHhhcCCchhhHHHHHHHHhhC-ccchhHHHHHHHHHHccCCHHHHHH
Confidence            5554555555544443322   12223333333444455555555555444331 2223344555555555555555555


Q ss_pred             HHHHHhhcCCCC
Q 039362          320 FFKSLGKRGMVP  331 (440)
Q Consensus       320 ~~~~~~~~~~~~  331 (440)
                      +|++++..++.|
T Consensus      1656 lfeRvi~l~l~~ 1667 (1710)
T KOG1070|consen 1656 LFERVIELKLSI 1667 (1710)
T ss_pred             HHHHHHhcCCCh
Confidence            555555444333

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.78  E-value=4.3e-07  Score=68.56  Aligned_cols=99  Identities=11%  Similarity=-0.093  Sum_probs=53.6

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHH
Q 039362          162 SWSALIDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYA  241 (440)
Q Consensus       162 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  241 (440)
                      .+..+...+...|++++|...|+...... +.+...+..+..++...|++++|...|+...+.+ +.+...+..+..++.
T Consensus        26 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~-p~~~~a~~~lg~~l~  103 (144)
T PRK15359         26 TVYASGYASWQEGDYSRAVIDFSWLVMAQ-PWSWRAHIALAGTWMMLKEYTTAINFYGHALMLD-ASHPEPVYQTGVCLK  103 (144)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHHHHHHHH
Confidence            34444555555555665655555555443 3344455555555555555555555555555544 445555555555555


Q ss_pred             hcCCHHHHHHHHhhhhhcCCc
Q 039362          242 KCGAIKEALIVFHGVEKHQSD  262 (440)
Q Consensus       242 ~~g~~~~A~~~~~~~~~~~~~  262 (440)
                      ..|++++|+..|+......|+
T Consensus       104 ~~g~~~eAi~~~~~Al~~~p~  124 (144)
T PRK15359        104 MMGEPGLAREAFQTAIKMSYA  124 (144)
T ss_pred             HcCCHHHHHHHHHHHHHhCCC
Confidence            555555555555555544443

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.75  E-value=2.4e-06  Score=67.58  Aligned_cols=196  Identities=13%  Similarity=0.113  Sum_probs=109.9

Q ss_pred             cCChHHHHHHHHHHHHc---C-CCCch-hhHHHHHHHHHhcCCHHHHHHHHhhhhhcCCchhhHHH-HHHHHHhcCChHH
Q 039362          208 LGALDQGRMMLRYMIDK---G-LSLTL-PLQTSLIDMYAKCGAIKEALIVFHGVEKHQSDVLIWNA-MIGGLAMHGFVKE  281 (440)
Q Consensus       208 ~~~~~~a~~~~~~~~~~---~-~~~~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~-l~~~~~~~~~~~~  281 (440)
                      ..+.++..+++..+...   | ..++. .++..+.-+....|+.+.|..+++.+....|...-... -...+-..|++++
T Consensus        25 ~rnseevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~~fp~S~RV~~lkam~lEa~~~~~~  104 (289)
T KOG3060|consen   25 VRNSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDRFPGSKRVGKLKAMLLEATGNYKE  104 (289)
T ss_pred             ccCHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhCCCChhHHHHHHHHHHHhhchhh
Confidence            35667777777766532   2 22222 23445555556667777777777776655443222111 1222334567777


Q ss_pred             HHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcC-C
Q 039362          282 SLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQM-P  360 (440)
Q Consensus       282 a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~  360 (440)
                      |+++++.+.+.. +.|..++.--+...-..|+.-+|++-+....+. +..|...|..+...|...|++++|.-.++++ -
T Consensus       105 A~e~y~~lL~dd-pt~~v~~KRKlAilka~GK~l~aIk~ln~YL~~-F~~D~EAW~eLaeiY~~~~~f~kA~fClEE~ll  182 (289)
T KOG3060|consen  105 AIEYYESLLEDD-PTDTVIRKRKLAILKAQGKNLEAIKELNEYLDK-FMNDQEAWHELAEIYLSEGDFEKAAFCLEELLL  182 (289)
T ss_pred             HHHHHHHHhccC-cchhHHHHHHHHHHHHcCCcHHHHHHHHHHHHH-hcCcHHHHHHHHHHHHhHhHHHHHHHHHHHHHH
Confidence            777777776654 444455554444455556666666666666554 3446667777777777777777777777776 3


Q ss_pred             CCc-cHhHHHHHHHHHHh---cCChhHHHHHHHHHHhcCCCCCchHHHH
Q 039362          361 LEP-TASMLGSLLTGCMN---HGKLDLAEIVGKKLVELQPDHDGRYVGL  405 (440)
Q Consensus       361 ~~p-~~~~~~~l~~~~~~---~g~~~~a~~~~~~~~~~~~~~~~~~~~l  405 (440)
                      +.| ++..+..+...+.-   ..+...|.++|.+++++.|.+...+..+
T Consensus       183 ~~P~n~l~f~rlae~~Yt~gg~eN~~~arkyy~~alkl~~~~~ral~GI  231 (289)
T KOG3060|consen  183 IQPFNPLYFQRLAEVLYTQGGAENLELARKYYERALKLNPKNLRALFGI  231 (289)
T ss_pred             cCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHhChHhHHHHHHH
Confidence            344 33334444444332   2345666677777777766554444333

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

Probab=98.73  E-value=1.2e-05  Score=64.32  Aligned_cols=158  Identities=15%  Similarity=0.055  Sum_probs=110.2

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhcC-CchhhHHHHHHHHHhcC
Q 039362          199 VSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQ-SDVLIWNAMIGGLAMHG  277 (440)
Q Consensus       199 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~l~~~~~~~~  277 (440)
                      ..+...+...|+-+....+........ +.+......++....+.|++..|...+++..... +|...|+.+..+|.+.|
T Consensus        70 ~~~a~a~~~~G~a~~~l~~~~~~~~~~-~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l~p~d~~~~~~lgaaldq~G  148 (257)
T COG5010          70 AKLATALYLRGDADSSLAVLQKSAIAY-PKDRELLAAQGKNQIRNGNFGEAVSVLRKAARLAPTDWEAWNLLGAALDQLG  148 (257)
T ss_pred             HHHHHHHHhcccccchHHHHhhhhccC-cccHHHHHHHHHHHHHhcchHHHHHHHHHHhccCCCChhhhhHHHHHHHHcc
Confidence            555566666677777666666654332 5555666667777778888888888888777654 36777888888888888


Q ss_pred             ChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHh
Q 039362          278 FVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFIC  357 (440)
Q Consensus       278 ~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  357 (440)
                      +++.|..-|.+..+.. .-++..++.+...+.-.|+.+.|..++......+ .-|..+-..+.......|++++|..+..
T Consensus       149 r~~~Ar~ay~qAl~L~-~~~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~-~ad~~v~~NLAl~~~~~g~~~~A~~i~~  226 (257)
T COG5010         149 RFDEARRAYRQALELA-PNEPSIANNLGMSLLLRGDLEDAETLLLPAYLSP-AADSRVRQNLALVVGLQGDFREAEDIAV  226 (257)
T ss_pred             ChhHHHHHHHHHHHhc-cCCchhhhhHHHHHHHcCCHHHHHHHHHHHHhCC-CCchHHHHHHHHHHhhcCChHHHHhhcc
Confidence            8888888887777653 3344566667666777788888888888777654 2255666677777778888888887766


Q ss_pred             cC
Q 039362          358 QM  359 (440)
Q Consensus       358 ~~  359 (440)
                      .-
T Consensus       227 ~e  228 (257)
T COG5010         227 QE  228 (257)
T ss_pred             cc
Confidence            55

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

Probab=98.73  E-value=7e-06  Score=65.58  Aligned_cols=151  Identities=13%  Similarity=0.085  Sum_probs=90.7

Q ss_pred             HHHHHhcCChHHHHHHHhhCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHh----cCCh
Q 039362          136 LDGYAKCGEMNMARQVFELMPERNVVSWSALIDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAH----LGAL  211 (440)
Q Consensus       136 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~  211 (440)
                      ...|+..|++++|++..+...  +......=+..+.+..+.+-|.+.+++|.+..   +..|.+-|..++.+    .+..
T Consensus       115 a~i~~~~~~~deAl~~~~~~~--~lE~~Al~VqI~lk~~r~d~A~~~lk~mq~id---ed~tLtQLA~awv~la~ggek~  189 (299)
T KOG3081|consen  115 AIIYMHDGDFDEALKALHLGE--NLEAAALNVQILLKMHRFDLAEKELKKMQQID---EDATLTQLAQAWVKLATGGEKI  189 (299)
T ss_pred             hHHhhcCCChHHHHHHHhccc--hHHHHHHHHHHHHHHHHHHHHHHHHHHHHccc---hHHHHHHHHHHHHHHhccchhh
Confidence            344666677777777766632  33333333455566777777777777776532   44566655555543    2456


Q ss_pred             HHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCC-chhhHHHHHHHHHhcCCh-HHHHHHHHHH
Q 039362          212 DQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQS-DVLIWNAMIGGLAMHGFV-KESLELFTEM  289 (440)
Q Consensus       212 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~-~~a~~~~~~m  289 (440)
                      .+|.-+|+++-++- +|++.+.+..+.++...|++++|..+++......+ ++.+...++..-...|.. +-..+.+.++
T Consensus       190 qdAfyifeE~s~k~-~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd~~dpetL~Nliv~a~~~Gkd~~~~~r~l~QL  268 (299)
T KOG3081|consen  190 QDAFYIFEELSEKT-PPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKDAKDPETLANLIVLALHLGKDAEVTERNLSQL  268 (299)
T ss_pred             hhHHHHHHHHhccc-CCChHHHccHHHHHHHhcCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHhCCChHHHHHHHHHH
Confidence            77777777776543 67777777777777777777777777777765543 445555555444444444 3344555555


Q ss_pred             HHc
Q 039362          290 QIV  292 (440)
Q Consensus       290 ~~~  292 (440)
                      ...
T Consensus       269 k~~  271 (299)
T KOG3081|consen  269 KLS  271 (299)
T ss_pred             Hhc
Confidence            543

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.73  E-value=2.7e-06  Score=80.64  Aligned_cols=129  Identities=16%  Similarity=0.129  Sum_probs=67.8

Q ss_pred             cHhhHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCC-cchHHHHHHHHHhcCCHHHHHHHHhcC-CCCccH-hHHHHHHH
Q 039362          297 DEITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPK-SEHYACMVDALSRAGQVTEAYEFICQM-PLEPTA-SMLGSLLT  373 (440)
Q Consensus       297 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p~~-~~~~~l~~  373 (440)
                      +...+..|.....+.|.+++|..+++.+.+.  .|+ ......++..+.+.+++++|...+++. ...|+. .....+..
T Consensus        85 ~~~~~~~La~i~~~~g~~~ea~~~l~~~~~~--~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~p~~~~~~~~~a~  162 (694)
T PRK15179         85 TELFQVLVARALEAAHRSDEGLAVWRGIHQR--FPDSSEAFILMLRGVKRQQGIEAGRAEIELYFSGGSSSAREILLEAK  162 (694)
T ss_pred             cHHHHHHHHHHHHHcCCcHHHHHHHHHHHhh--CCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhcCCCCHHHHHHHHH
Confidence            3444555555555555555555555555552  233 223344455555555555555555555 334433 33344445


Q ss_pred             HHHhcCChhHHHHHHHHHHhcCCCCCchHHHHHHHHHhccChHHHHHHHHHHHh
Q 039362          374 GCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEARTTREAMET  427 (440)
Q Consensus       374 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  427 (440)
                      ++.+.|++++|..+|+++...+|+++.++..++.++...|+.++|...|++..+
T Consensus       163 ~l~~~g~~~~A~~~y~~~~~~~p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~  216 (694)
T PRK15179        163 SWDEIGQSEQADACFERLSRQHPEFENGYVGWAQSLTRRGALWRARDVLQAGLD  216 (694)
T ss_pred             HHHHhcchHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            555555555555555555555555555555555555555555555555555544

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

Probab=98.69  E-value=2.5e-05  Score=75.14  Aligned_cols=57  Identities=7%  Similarity=-0.004  Sum_probs=29.1

Q ss_pred             CChHHHHHHHHHHHccCChhhHHHHHHHHHHcCCCCCc-chHHHHHHHhhchhcHHHHHH
Q 039362           26 PRIFYWNTVIRGYSKSKNPNKSISLFVKMLRAGVSPDH-LTYPFLAKASGRLAKRELAVA   84 (440)
Q Consensus        26 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~   84 (440)
                      .+...|..|+..+...+++++|.++.+...+.  .|+. ..|-.+...+.+.++.+.+..
T Consensus        29 ~n~~a~~~Li~~~~~~~~~deai~i~~~~l~~--~P~~i~~yy~~G~l~~q~~~~~~~~l   86 (906)
T PRK14720         29 SKFKELDDLIDAYKSENLTDEAKDICEEHLKE--HKKSISALYISGILSLSRRPLNDSNL   86 (906)
T ss_pred             chHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh--CCcceehHHHHHHHHHhhcchhhhhh
Confidence            44556666666666666666666666655543  2332 223333334444444444433

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

Probab=98.67  E-value=5.3e-06  Score=72.15  Aligned_cols=112  Identities=20%  Similarity=0.143  Sum_probs=69.0

Q ss_pred             HcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcC-CCCcc-HhHHHHHHHHHHhcCChhHHHH
Q 039362          309 AHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQM-PLEPT-ASMLGSLLTGCMNHGKLDLAEI  386 (440)
Q Consensus       309 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p~-~~~~~~l~~~~~~~g~~~~a~~  386 (440)
                      ...|.++.|+..++.+.... +-|+.......+.+.+.++.++|.+.++++ ...|+ ......+..++.+.|++.+|+.
T Consensus       317 ~~~~~~d~A~~~l~~L~~~~-P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l~P~~~~l~~~~a~all~~g~~~eai~  395 (484)
T COG4783         317 YLAGQYDEALKLLQPLIAAQ-PDNPYYLELAGDILLEANKAKEAIERLKKALALDPNSPLLQLNLAQALLKGGKPQEAIR  395 (484)
T ss_pred             HHhcccchHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHhcCChHHHHH
Confidence            34566677777777666542 223344445556666777777777777766 55555 3445556666777777777777


Q ss_pred             HHHHHHhcCCCCCchHHHHHHHHHhccChHHHHHH
Q 039362          387 VGKKLVELQPDHDGRYVGLSNVYAIFKRWDEARTT  421 (440)
Q Consensus       387 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  421 (440)
                      +++.....+|.++..|..|+.+|...|+..+|...
T Consensus       396 ~L~~~~~~~p~dp~~w~~LAqay~~~g~~~~a~~A  430 (484)
T COG4783         396 ILNRYLFNDPEDPNGWDLLAQAYAELGNRAEALLA  430 (484)
T ss_pred             HHHHHhhcCCCCchHHHHHHHHHHHhCchHHHHHH
Confidence            77777777777777776666666555554444433

>PF12854 PPR_1: PPR repeat

Probab=98.64  E-value=5.7e-08  Score=52.15  Aligned_cols=32  Identities=41%  Similarity=0.567  Sum_probs=19.5

Q ss_pred             CCCCcHHHHHHHHHHHHhcCCHHHHHHHhhCC
Q 039362           93 GYESDLFISNSLIHMYGSCGDIVYAREVFDGM  124 (440)
Q Consensus        93 ~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  124 (440)
                      |+.||..+|+.||.+|++.|++++|.++|++|
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            45566666666666666666666666666555

>PF12854 PPR_1: PPR repeat

Probab=98.64  E-value=4.6e-08  Score=52.54  Aligned_cols=32  Identities=31%  Similarity=0.579  Sum_probs=14.5

Q ss_pred             CCCccHhhHHHHHHHHHcCCChHHHHHHHHHH
Q 039362          293 GITPDEITFLGLLSACAHGGLVMEAWYFFKSL  324 (440)
Q Consensus       293 ~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~  324 (440)
                      |+.||..||+.+|.+|++.|++++|.++|++|
T Consensus         2 G~~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M   33 (34)
T PF12854_consen    2 GCEPDVVTYNTLIDGYCKAGRVDEAFELFDEM   33 (34)
T ss_pred             CCCCcHhHHHHHHHHHHHCCCHHHHHHHHHhC
Confidence            34444444444444444444444444444443

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

Probab=98.62  E-value=6e-07  Score=67.51  Aligned_cols=97  Identities=14%  Similarity=0.062  Sum_probs=44.3

Q ss_pred             HHHHHHHHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcC-CCCc-cHhHHHHHHHHHHhcC
Q 039362          302 LGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQM-PLEP-TASMLGSLLTGCMNHG  379 (440)
Q Consensus       302 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~g  379 (440)
                      ..+...+...|++++|...++.+...+ +.+...+..+...+...|++++|...+++. ...| +...+..+...+...|
T Consensus        21 ~~~a~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~la~~~~~~g   99 (135)
T TIGR02552        21 YALAYNLYQQGRYDEALKLFQLLAAYD-PYNSRYWLGLAACCQMLKEYEEAIDAYALAAALDPDDPRPYFHAAECLLALG   99 (135)
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHcC
Confidence            334444444555555555555544432 113334444444444555555555544444 2222 2334444444444555


Q ss_pred             ChhHHHHHHHHHHhcCCCCC
Q 039362          380 KLDLAEIVGKKLVELQPDHD  399 (440)
Q Consensus       380 ~~~~a~~~~~~~~~~~~~~~  399 (440)
                      ++++|...++++.+.+|.+.
T Consensus       100 ~~~~A~~~~~~al~~~p~~~  119 (135)
T TIGR02552       100 EPESALKALDLAIEICGENP  119 (135)
T ss_pred             CHHHHHHHHHHHHHhccccc
Confidence            55555555555555544443

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

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.62  E-value=1.9e-05  Score=75.01  Aligned_cols=129  Identities=9%  Similarity=0.101  Sum_probs=58.3

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCC-HHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHH
Q 039362          160 VVSWSALIDGYVKCGDYKEALVIFEEMRDVGSKAN-EVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLID  238 (440)
Q Consensus       160 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  238 (440)
                      ...+..|.....+.|.+++|..+++...+.  .|+ ......++.++.+.+++++|...+++..+.. +.+......+..
T Consensus        86 ~~~~~~La~i~~~~g~~~ea~~~l~~~~~~--~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~-p~~~~~~~~~a~  162 (694)
T PRK15179         86 ELFQVLVARALEAAHRSDEGLAVWRGIHQR--FPDSSEAFILMLRGVKRQQGIEAGRAEIELYFSGG-SSSAREILLEAK  162 (694)
T ss_pred             HHHHHHHHHHHHHcCCcHHHHHHHHHHHhh--CCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhcC-CCCHHHHHHHHH
Confidence            344444444444444444444444444443  222 2233334444444444444444444444443 334444444444


Q ss_pred             HHHhcCCHHHHHHHHhhhhhcCCc-hhhHHHHHHHHHhcCChHHHHHHHHHHHH
Q 039362          239 MYAKCGAIKEALIVFHGVEKHQSD-VLIWNAMIGGLAMHGFVKESLELFTEMQI  291 (440)
Q Consensus       239 ~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~m~~  291 (440)
                      ++...|++++|..+|+++....|+ ...+..+..++...|+.++|...|++..+
T Consensus       163 ~l~~~g~~~~A~~~y~~~~~~~p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~  216 (694)
T PRK15179        163 SWDEIGQSEQADACFERLSRQHPEFENGYVGWAQSLTRRGALWRARDVLQAGLD  216 (694)
T ss_pred             HHHHhcchHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            444444444444444444433332 33444444444444555555554444443

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

Probab=98.56  E-value=5.4e-05  Score=66.07  Aligned_cols=107  Identities=15%  Similarity=0.052  Sum_probs=46.5

Q ss_pred             hcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCC-cchHHHHHHHHHhcCCHHHHH
Q 039362          275 MHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPK-SEHYACMVDALSRAGQVTEAY  353 (440)
Q Consensus       275 ~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~  353 (440)
                      ..|.+++|+..+..+.... +-|..........+.+.++.++|.+.++++...  .|+ ......+.++|.+.|++.+|+
T Consensus       318 ~~~~~d~A~~~l~~L~~~~-P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l--~P~~~~l~~~~a~all~~g~~~eai  394 (484)
T COG4783         318 LAGQYDEALKLLQPLIAAQ-PDNPYYLELAGDILLEANKAKEAIERLKKALAL--DPNSPLLQLNLAQALLKGGKPQEAI  394 (484)
T ss_pred             HhcccchHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhc--CCCccHHHHHHHHHHHhcCChHHHH
Confidence            3444455555555444331 222222333334444445555555555544443  232 222334444455555555555


Q ss_pred             HHHhcC--CCCccHhHHHHHHHHHHhcCChhHH
Q 039362          354 EFICQM--PLEPTASMLGSLLTGCMNHGKLDLA  384 (440)
Q Consensus       354 ~~~~~~--~~~p~~~~~~~l~~~~~~~g~~~~a  384 (440)
                      .+++..  ..+-|+..|..|..+|...|+..++
T Consensus       395 ~~L~~~~~~~p~dp~~w~~LAqay~~~g~~~~a  427 (484)
T COG4783         395 RILNRYLFNDPEDPNGWDLLAQAYAELGNRAEA  427 (484)
T ss_pred             HHHHHHhhcCCCCchHHHHHHHHHHHhCchHHH
Confidence            554444  2222344445555555555444433

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=98.55  E-value=1.1e-06  Score=65.22  Aligned_cols=95  Identities=9%  Similarity=-0.059  Sum_probs=81.8

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHhcC-CCCcc-HhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCCchHHHHHHHHHhc
Q 039362          335 HYACMVDALSRAGQVTEAYEFICQM-PLEPT-ASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIF  412 (440)
Q Consensus       335 ~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~  412 (440)
                      ....+...+...|++++|.++|+-. .+.|. ..-|..|.-++...|++++|+..|.++..++|++|..+..++.++...
T Consensus        37 ~lY~~A~~ly~~G~l~~A~~~f~~L~~~Dp~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~ddp~~~~~ag~c~L~l  116 (157)
T PRK15363         37 TLYRYAMQLMEVKEFAGAARLFQLLTIYDAWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKIDAPQAPWAAAECYLAC  116 (157)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCchHHHHHHHHHHHc
Confidence            3445566677899999999999988 56664 466788888899999999999999999999999999999999999999


Q ss_pred             cChHHHHHHHHHHHhcC
Q 039362          413 KRWDEARTTREAMETRG  429 (440)
Q Consensus       413 g~~~~A~~~~~~~~~~~  429 (440)
                      |+.+.|++.|+..+...
T Consensus       117 G~~~~A~~aF~~Ai~~~  133 (157)
T PRK15363        117 DNVCYAIKALKAVVRIC  133 (157)
T ss_pred             CCHHHHHHHHHHHHHHh
Confidence            99999999999888765

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=98.54  E-value=0.00045  Score=59.93  Aligned_cols=414  Identities=13%  Similarity=0.097  Sum_probs=224.1

Q ss_pred             ccccccccCChhhHHHHhhhcCC---CCh------HHHHHHHHHHHccCChhhHHHHHHHHHHcCCCCCcchHHHHHHH-
Q 039362            3 SFSALSYLGNIDYSCKVLSHLSN---PRI------FYWNTVIRGYSKSKNPNKSISLFVKMLRAGVSPDHLTYPFLAKA-   72 (440)
Q Consensus         3 ~~y~~~~~g~~~~A~~~~~~~~~---~~~------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-   72 (440)
                      ++|...+++++.+|.++|.++-.   .+.      ..-+.++++|... +.+.....+....+.  .| ...|..+..+ 
T Consensus        12 Qgf~Lqkq~~~~esEkifskI~~e~~~~~f~lkeEvl~grilnAffl~-nld~Me~~l~~l~~~--~~-~s~~l~LF~~L   87 (549)
T PF07079_consen   12 QGFILQKQKKFQESEKIFSKIYDEKESSPFLLKEEVLGGRILNAFFLN-NLDLMEKQLMELRQQ--FG-KSAYLPLFKAL   87 (549)
T ss_pred             hhHHHHHHhhhhHHHHHHHHHHHHhhcchHHHHHHHHhhHHHHHHHHh-hHHHHHHHHHHHHHh--cC-CchHHHHHHHH
Confidence            34566678999999999998852   222      2345666776543 445555555555543  24 3445555544 


Q ss_pred             -hhchhcHHHHHHHHHHHHHc--CCC------------CcHHHHHHHHHHHHhcCCHHHHHHHhhCCCC--------Cch
Q 039362           73 -SGRLAKRELAVAVHAQIAKT--GYE------------SDLFISNSLIHMYGSCGDIVYAREVFDGMPT--------KMS  129 (440)
Q Consensus        73 -~~~~~~~~~a~~~~~~~~~~--~~~------------~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~--------~~~  129 (440)
                       +.+.+.+++|.+.+......  +..            +|...-+..++++...|.+.+++.+++++.+        -+.
T Consensus        88 ~~Y~~k~~~kal~~ls~w~~~~~~~~~~~Ld~ni~~l~~df~l~~i~a~sLIe~g~f~EgR~iLn~i~~~llkrE~~w~~  167 (549)
T PF07079_consen   88 VAYKQKEYRKALQALSVWKEQIKGTESPWLDTNIQQLFSDFFLDEIEAHSLIETGRFSEGRAILNRIIERLLKRECEWNS  167 (549)
T ss_pred             HHHHhhhHHHHHHHHHHHHhhhcccccchhhhhHHHHhhHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHhhhhhcccH
Confidence             35778899999888777654  221            1223335677888899999999998888753        366


Q ss_pred             hhHHHHHHHHHhc--------CChHHHHHHHhh-------CCC----------CchhhHHHHHHHHHhc--CCHHHHHHH
Q 039362          130 VSWNSMLDGYAKC--------GEMNMARQVFEL-------MPE----------RNVVSWSALIDGYVKC--GDYKEALVI  182 (440)
Q Consensus       130 ~~~~~l~~~~~~~--------~~~~~a~~~~~~-------~~~----------~~~~~~~~l~~~~~~~--~~~~~a~~~  182 (440)
                      .+|+.++-.+.++        ...+-+...++.       +..          |.......++....-.  .+..--.++
T Consensus       168 d~yd~~vlmlsrSYfLEl~e~~s~dl~pdyYemilfY~kki~~~d~~~Y~k~~peeeL~s~imqhlfi~p~e~l~~~mq~  247 (549)
T PF07079_consen  168 DMYDRAVLMLSRSYFLELKESMSSDLYPDYYEMILFYLKKIHAFDQRPYEKFIPEEELFSTIMQHLFIVPKERLPPLMQI  247 (549)
T ss_pred             HHHHHHHHHHhHHHHHHHHHhcccccChHHHHHHHHHHHHHHHHhhchHHhhCcHHHHHHHHHHHHHhCCHhhccHHHHH
Confidence            6777644444322        111111111111       111          1111122222221111  112222233


Q ss_pred             HHHHHhcCCCCCHHH-HHHHHHHHHhcCChHHHHHHHHHHHHcCCC----CchhhHHHHHHHHHhcCCHHHHHHHHhhhh
Q 039362          183 FEEMRDVGSKANEVT-LVSVLCACAHLGALDQGRMMLRYMIDKGLS----LTLPLQTSLIDMYAKCGAIKEALIVFHGVE  257 (440)
Q Consensus       183 ~~~~~~~~~~~~~~~-~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~----~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  257 (440)
                      ++.....-+.|+... ...+...+..  +.+++..+-+.+....+.    .-..++..++....+.++...|...+.-+.
T Consensus       248 l~~We~~yv~p~~~LVi~~L~~~f~~--~~e~~~~~ce~ia~~~i~~Lke~li~~F~~~Ls~~Vk~~~T~~a~q~l~lL~  325 (549)
T PF07079_consen  248 LENWENFYVHPNYDLVIEPLKQQFMS--DPEQVGHFCEAIASSKIEKLKEELIDRFGNLLSFKVKQVQTEEAKQYLALLK  325 (549)
T ss_pred             HHHHHhhccCCchhHHHHHHHHHHhc--ChHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Confidence            333333334444332 2233333332  555555555555433211    113456666777777888888877777666


Q ss_pred             hcCCchhhHHHH-------HHHHHh----cCChHHHHHHHHHHHHcCCCccHhhHHHH---HHHHHcCCC-hHHHHHHHH
Q 039362          258 KHQSDVLIWNAM-------IGGLAM----HGFVKESLELFTEMQIVGITPDEITFLGL---LSACAHGGL-VMEAWYFFK  322 (440)
Q Consensus       258 ~~~~~~~~~~~l-------~~~~~~----~~~~~~a~~~~~~m~~~~~~p~~~~~~~l---~~~~~~~~~-~~~a~~~~~  322 (440)
                      -.+|+...-..+       -...+.    .-+...=+.+|+......+... .-...|   ..-+.+.|. -++|.++++
T Consensus       326 ~ldp~~svs~Kllls~~~lq~Iv~~DD~~~Tklr~yL~lwe~~qs~DiDrq-QLvh~L~~~Ak~lW~~g~~dekalnLLk  404 (549)
T PF07079_consen  326 ILDPRISVSEKLLLSPKVLQDIVCEDDESYTKLRDYLNLWEEIQSYDIDRQ-QLVHYLVFGAKHLWEIGQCDEKALNLLK  404 (549)
T ss_pred             hcCCcchhhhhhhcCHHHHHHHHhcchHHHHHHHHHHHHHHHHHhhcccHH-HHHHHHHHHHHHHHhcCCccHHHHHHHH
Confidence            556654322111       112221    1122333445555544332111 111112   222334454 788999999


Q ss_pred             HHhhcCCCC-CcchHHHHH----HHHHhc---CCHHH---HHHHHhcCCCCc----cHhHHHHHHHH--HHhcCChhHHH
Q 039362          323 SLGKRGMVP-KSEHYACMV----DALSRA---GQVTE---AYEFICQMPLEP----TASMLGSLLTG--CMNHGKLDLAE  385 (440)
Q Consensus       323 ~~~~~~~~~-~~~~~~~l~----~~~~~~---~~~~~---a~~~~~~~~~~p----~~~~~~~l~~~--~~~~g~~~~a~  385 (440)
                      .+.+-  .| |..+-+.+.    ..|...   ..+.+   -...+++.|+.|    +...-|.|..+  +..+|++.++.
T Consensus       405 ~il~f--t~yD~ec~n~v~~fvKq~Y~qaLs~~~~~rLlkLe~fi~e~gl~~i~i~e~eian~LaDAEyLysqgey~kc~  482 (549)
T PF07079_consen  405 LILQF--TNYDIECENIVFLFVKQAYKQALSMHAIPRLLKLEDFITEVGLTPITISEEEIANFLADAEYLYSQGEYHKCY  482 (549)
T ss_pred             HHHHh--ccccHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCCcccccHHHHHHHHHHHHHHHhcccHHHHH
Confidence            88874  33 333333222    222221   12222   233344456666    34556666655  55799999999


Q ss_pred             HHHHHHHhcCCCCCchHHHHHHHHHhccChHHHHHHHHHHH
Q 039362          386 IVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEARTTREAME  426 (440)
Q Consensus       386 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  426 (440)
                      -.-.-+.+..| ++.+|..++.++....++++|+.++..+.
T Consensus       483 ~ys~WL~~iaP-S~~~~RLlGl~l~e~k~Y~eA~~~l~~LP  522 (549)
T PF07079_consen  483 LYSSWLTKIAP-SPQAYRLLGLCLMENKRYQEAWEYLQKLP  522 (549)
T ss_pred             HHHHHHHHhCC-cHHHHHHHHHHHHHHhhHHHHHHHHHhCC
Confidence            99999999999 78899999999999999999999997764

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.54  E-value=4.1e-05  Score=60.87  Aligned_cols=187  Identities=16%  Similarity=0.158  Sum_probs=138.9

Q ss_pred             cCCHHHHHHHHHHHHh---cC-CCCCHHH-HHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHH
Q 039362          173 CGDYKEALVIFEEMRD---VG-SKANEVT-LVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIK  247 (440)
Q Consensus       173 ~~~~~~a~~~~~~~~~---~~-~~~~~~~-~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  247 (440)
                      ..+.++..+++.++..   .| ..++..+ |..+.-+....|+.+.|...++.+.+.- |.+..+...-...+-..|+++
T Consensus        25 ~rnseevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~~f-p~S~RV~~lkam~lEa~~~~~  103 (289)
T KOG3060|consen   25 VRNSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDRF-PGSKRVGKLKAMLLEATGNYK  103 (289)
T ss_pred             ccCHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhC-CCChhHHHHHHHHHHHhhchh
Confidence            4678889888888754   34 4555554 4455556677889999999999988775 656666555566667789999


Q ss_pred             HHHHHHhhhhhcCC-chhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHhh
Q 039362          248 EALIVFHGVEKHQS-DVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGK  326 (440)
Q Consensus       248 ~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  326 (440)
                      +|+++|+.+.+..| |..++-.-+...-..|+.-+|++-+....+. +..|...|.-+...|...|++++|.-.++++.-
T Consensus       104 ~A~e~y~~lL~ddpt~~v~~KRKlAilka~GK~l~aIk~ln~YL~~-F~~D~EAW~eLaeiY~~~~~f~kA~fClEE~ll  182 (289)
T KOG3060|consen  104 EAIEYYESLLEDDPTDTVIRKRKLAILKAQGKNLEAIKELNEYLDK-FMNDQEAWHELAEIYLSEGDFEKAAFCLEELLL  182 (289)
T ss_pred             hHHHHHHHHhccCcchhHHHHHHHHHHHHcCCcHHHHHHHHHHHHH-hcCcHHHHHHHHHHHHhHhHHHHHHHHHHHHHH
Confidence            99999999987777 5666766677777778888888888887765 577888999999999999999999999999887


Q ss_pred             cCCCC-CcchHHHHHHHHHhcC---CHHHHHHHHhcC-CCCc
Q 039362          327 RGMVP-KSEHYACMVDALSRAG---QVTEAYEFICQM-PLEP  363 (440)
Q Consensus       327 ~~~~~-~~~~~~~l~~~~~~~~---~~~~a~~~~~~~-~~~p  363 (440)
                      .  .| ++..+..+...+.-.|   +.+-|.++|.+. ++.|
T Consensus       183 ~--~P~n~l~f~rlae~~Yt~gg~eN~~~arkyy~~alkl~~  222 (289)
T KOG3060|consen  183 I--QPFNPLYFQRLAEVLYTQGGAENLELARKYYERALKLNP  222 (289)
T ss_pred             c--CCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHhCh
Confidence            4  34 4444556666554444   456678888776 6566

>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=98.54  E-value=2.4e-06  Score=74.91  Aligned_cols=120  Identities=19%  Similarity=0.208  Sum_probs=83.2

Q ss_pred             HHHHHHHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcC-CCCc-cHhHHHHHHHHHHhcCC
Q 039362          303 GLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQM-PLEP-TASMLGSLLTGCMNHGK  380 (440)
Q Consensus       303 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~  380 (440)
                      .|+..+...++++.|+.+++++.+..  |+  ....+++.+...++-.+|.+++++. ...| +...+......+.+.++
T Consensus       174 ~Ll~~l~~t~~~~~ai~lle~L~~~~--pe--v~~~LA~v~l~~~~E~~AI~ll~~aL~~~p~d~~LL~~Qa~fLl~k~~  249 (395)
T PF09295_consen  174 TLLKYLSLTQRYDEAIELLEKLRERD--PE--VAVLLARVYLLMNEEVEAIRLLNEALKENPQDSELLNLQAEFLLSKKK  249 (395)
T ss_pred             HHHHHHhhcccHHHHHHHHHHHHhcC--Cc--HHHHHHHHHHhcCcHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCC
Confidence            34444445566666666666666543  32  3334556666666666666666665 2233 45556666677888888


Q ss_pred             hhHHHHHHHHHHhcCCCCCchHHHHHHHHHhccChHHHHHHHHHHH
Q 039362          381 LDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEARTTREAME  426 (440)
Q Consensus       381 ~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  426 (440)
                      ++.|+.+.+++.+..|.+..+|..|+.+|...|++++|+-.++.+.
T Consensus       250 ~~lAL~iAk~av~lsP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~P  295 (395)
T PF09295_consen  250 YELALEIAKKAVELSPSEFETWYQLAECYIQLGDFENALLALNSCP  295 (395)
T ss_pred             HHHHHHHHHHHHHhCchhHHHHHHHHHHHHhcCCHHHHHHHHhcCc
Confidence            8888888888888888888888888888888888888888887765

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

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

Probab=98.51  E-value=7.6e-06  Score=61.49  Aligned_cols=90  Identities=10%  Similarity=0.013  Sum_probs=39.2

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCC-chhhHHHHHHHHHhcCCh
Q 039362          201 VLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQS-DVLIWNAMIGGLAMHGFV  279 (440)
Q Consensus       201 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~  279 (440)
                      +...+...|++++|...++.+.+.+ +.+...+..+..++...|++++|...++...+..| +...+..+...+...|++
T Consensus        23 ~a~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~la~~~~~~g~~  101 (135)
T TIGR02552        23 LAYNLYQQGRYDEALKLFQLLAAYD-PYNSRYWLGLAACCQMLKEYEEAIDAYALAAALDPDDPRPYFHAAECLLALGEP  101 (135)
T ss_pred             HHHHHHHcccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHcCCH
Confidence            3334444444444444444444433 33344444444444444444444444444433333 233333444444444444


Q ss_pred             HHHHHHHHHHHH
Q 039362          280 KESLELFTEMQI  291 (440)
Q Consensus       280 ~~a~~~~~~m~~  291 (440)
                      ++|...|+...+
T Consensus       102 ~~A~~~~~~al~  113 (135)
T TIGR02552       102 ESALKALDLAIE  113 (135)
T ss_pred             HHHHHHHHHHHH
Confidence            444444444443

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

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=98.51  E-value=0.00067  Score=60.22  Aligned_cols=368  Identities=11%  Similarity=0.070  Sum_probs=216.6

Q ss_pred             CCCcchHHHHHHHhhchhcHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhcCCHHHHHHHhhCCCC--CchhhHHHHHH
Q 039362           60 SPDHLTYPFLAKASGRLAKRELAVAVHAQIAKTGYESDLFISNSLIHMYGSCGDIVYAREVFDGMPT--KMSVSWNSMLD  137 (440)
Q Consensus        60 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~--~~~~~~~~l~~  137 (440)
                      +-|..+|..||+-+... .++++.+.++++... ++-....|..-+..-.+..+++..+.+|.+...  -+...|...+.
T Consensus        17 P~di~sw~~lire~qt~-~~~~~R~~YEq~~~~-FP~s~r~W~~yi~~El~skdfe~VEkLF~RCLvkvLnlDLW~lYl~   94 (656)
T KOG1914|consen   17 PYDIDSWSQLIREAQTQ-PIDKVRETYEQLVNV-FPSSPRAWKLYIERELASKDFESVEKLFSRCLVKVLNLDLWKLYLS   94 (656)
T ss_pred             CccHHHHHHHHHHHccC-CHHHHHHHHHHHhcc-CCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHhhHhHHHHHHH
Confidence            55788999999987666 999999999999875 344677889999999999999999999988764  35566666655


Q ss_pred             HHHh-cCChHHH----HHHHhhCCC------CchhhHHHHHHH---------HHhcCCHHHHHHHHHHHHhcCCCC----
Q 039362          138 GYAK-CGEMNMA----RQVFELMPE------RNVVSWSALIDG---------YVKCGDYKEALVIFEEMRDVGSKA----  193 (440)
Q Consensus       138 ~~~~-~~~~~~a----~~~~~~~~~------~~~~~~~~l~~~---------~~~~~~~~~a~~~~~~~~~~~~~~----  193 (440)
                      ---+ .|+...+    .+.|+-...      .+...|+..+.-         +..+.+.+.+.++|+++....+.-    
T Consensus        95 YVR~~~~~~~~~r~~m~qAy~f~l~kig~di~s~siW~eYi~FL~~vea~gk~ee~QRI~~vRriYqral~tPm~nlEkL  174 (656)
T KOG1914|consen   95 YVRETKGKLFGYREKMVQAYDFALEKIGMDIKSYSIWDEYINFLEGVEAVGKYEENQRITAVRRIYQRALVTPMHNLEKL  174 (656)
T ss_pred             HHHHHccCcchHHHHHHHHHHHHHHHhccCcccchhHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHhcCccccHHHH
Confidence            4322 2333332    222222211      233345544432         334456677788888876542111    


Q ss_pred             --CHHHHHHHHHHH-------HhcCChHHHHHHHHHHHH--cCCCCchh---------------hHHHHHHHHHhcC---
Q 039362          194 --NEVTLVSVLCAC-------AHLGALDQGRMMLRYMID--KGLSLTLP---------------LQTSLIDMYAKCG---  244 (440)
Q Consensus       194 --~~~~~~~l~~~~-------~~~~~~~~a~~~~~~~~~--~~~~~~~~---------------~~~~l~~~~~~~g---  244 (440)
                        |-..|..-++..       -+...+..|.++++++..  .|+.....               .|..+|.-=...+   
T Consensus       175 W~DY~~fE~~IN~~tarK~i~e~s~~Ym~AR~~~qel~~lt~GL~r~~~~vp~~~T~~e~~qv~~W~n~I~wEksNpL~t  254 (656)
T KOG1914|consen  175 WKDYEAFEQEINIITARKFIGERSPEYMNARRVYQELQNLTRGLNRNAPAVPPKGTKDEIQQVELWKNWIKWEKSNPLRT  254 (656)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHHHHHhhhcccCCCCCCCCChHHHHHHHHHHHHHHHHhcCCccc
Confidence              111222111111       123456677777777643  22211111               1222222111111   


Q ss_pred             ---C--HHHHHHHHhhhhhc---CCchhh-HH----HHHHHHHhcCC-------hHHHHHHHHHHHHcCCCccHhhHHHH
Q 039362          245 ---A--IKEALIVFHGVEKH---QSDVLI-WN----AMIGGLAMHGF-------VKESLELFTEMQIVGITPDEITFLGL  304 (440)
Q Consensus       245 ---~--~~~A~~~~~~~~~~---~~~~~~-~~----~l~~~~~~~~~-------~~~a~~~~~~m~~~~~~p~~~~~~~l  304 (440)
                         .  .....-.++.....   .|++.. +.    ..-..+...|+       .+++..+++.....-..-+..+|..+
T Consensus       255 ~~~~~~~~Rv~yayeQ~ll~l~~~peiWy~~s~yl~~~s~l~~~~~d~~~a~~~t~e~~~~yEr~I~~l~~~~~~Ly~~~  334 (656)
T KOG1914|consen  255 LDGTMLTRRVMYAYEQCLLYLGYHPEIWYDYSMYLIEISDLLTEKGDVPDAKSLTDEAASIYERAIEGLLKENKLLYFAL  334 (656)
T ss_pred             ccccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhhHHHHHhcccccchhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence               0  00111112221111   121110 00    01112222333       35566666665543223333344333


Q ss_pred             HHHHH---cCCChHHHHHHHHHHhhc-CCCCCcchHHHHHHHHHhcCCHHHHHHHHhcC---CCCc-cHhHHHHHHHHHH
Q 039362          305 LSACA---HGGLVMEAWYFFKSLGKR-GMVPKSEHYACMVDALSRAGQVTEAYEFICQM---PLEP-TASMLGSLLTGCM  376 (440)
Q Consensus       305 ~~~~~---~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~---~~~p-~~~~~~~l~~~~~  376 (440)
                      .+.-.   ..+..+....+++++... ...| ..+|..+++.-.+..-+..|..+|.++   +..+ ++.+..+++.-+ 
T Consensus       335 a~~eE~~~~~n~~~~~~~~~~~ll~~~~~~~-tLv~~~~mn~irR~eGlkaaR~iF~kaR~~~r~~hhVfVa~A~mEy~-  412 (656)
T KOG1914|consen  335 ADYEESRYDDNKEKKVHEIYNKLLKIEDIDL-TLVYCQYMNFIRRAEGLKAARKIFKKAREDKRTRHHVFVAAALMEYY-  412 (656)
T ss_pred             HhhHHHhcccchhhhhHHHHHHHHhhhccCC-ceehhHHHHHHHHhhhHHHHHHHHHHHhhccCCcchhhHHHHHHHHH-
Confidence            32211   112366677778877765 3333 456788888888999999999999998   3344 556667777655 


Q ss_pred             hcCChhHHHHHHHHHHhcCCCCCchHHHHHHHHHhccChHHHHHHHHHHHhcCCc
Q 039362          377 NHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEARTTREAMETRGVK  431 (440)
Q Consensus       377 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  431 (440)
                      ..+|.+.|.++|+-.+...++++..-...+..+...|+-..|+.+|++.+..+++
T Consensus       413 cskD~~~AfrIFeLGLkkf~d~p~yv~~YldfL~~lNdd~N~R~LFEr~l~s~l~  467 (656)
T KOG1914|consen  413 CSKDKETAFRIFELGLKKFGDSPEYVLKYLDFLSHLNDDNNARALFERVLTSVLS  467 (656)
T ss_pred             hcCChhHHHHHHHHHHHhcCCChHHHHHHHHHHHHhCcchhHHHHHHHHHhccCC
Confidence            5778999999999999999999998899999999999999999999999988554

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=98.49  E-value=4.4e-06  Score=70.88  Aligned_cols=158  Identities=14%  Similarity=0.112  Sum_probs=104.8

Q ss_pred             HHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCCcchHHH-------------
Q 039362          272 GLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYAC-------------  338 (440)
Q Consensus       272 ~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~-------------  338 (440)
                      .+...|++++|...-....+.. ..+......-..++...++.+.+...|++.+..+  |+...-..             
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 CLAFLGDYDEAQSEAIDILKLD-ATNAEALYVRGLCLYYNDNADKAINHFQQALRLD--PDHQKSKSASMMPKKLEVKKE  254 (486)
T ss_pred             hhhhcccchhHHHHHHHHHhcc-cchhHHHHhcccccccccchHHHHHHHhhhhccC--hhhhhHHhHhhhHHHHHHHHh
Confidence            4556678888777766665442 1222222111223345677788888888777653  44332211             


Q ss_pred             HHHHHHhcCCHHHHHHHHhcC-CCCc-----cHhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCCchHHHHHHHHHhc
Q 039362          339 MVDALSRAGQVTEAYEFICQM-PLEP-----TASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIF  412 (440)
Q Consensus       339 l~~~~~~~~~~~~a~~~~~~~-~~~p-----~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~  412 (440)
                      -..-..+.|++..|.+.+.+. ++.|     +...|.....+..+.|+..+|+.-.+.+..++|.-...+..-+.++...
T Consensus       255 ~gN~~fk~G~y~~A~E~Yteal~idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al~iD~syikall~ra~c~l~l  334 (486)
T KOG0550|consen  255 RGNDAFKNGNYRKAYECYTEALNIDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEALKIDSSYIKALLRRANCHLAL  334 (486)
T ss_pred             hhhhHhhccchhHHHHHHHHhhcCCccccchhHHHHHHhHhhhcccCCchhhhhhhhhhhhcCHHHHHHHHHHHHHHHHH
Confidence            122345778888888888887 4444     4455666666777888888898888888888888777788888888888


Q ss_pred             cChHHHHHHHHHHHhcCCcc
Q 039362          413 KRWDEARTTREAMETRGVKK  432 (440)
Q Consensus       413 g~~~~A~~~~~~~~~~~~~~  432 (440)
                      ++|++|.+-+++..+.....
T Consensus       335 e~~e~AV~d~~~a~q~~~s~  354 (486)
T KOG0550|consen  335 EKWEEAVEDYEKAMQLEKDC  354 (486)
T ss_pred             HHHHHHHHHHHHHHhhcccc
Confidence            88888888888887765443

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=98.49  E-value=0.0012  Score=62.20  Aligned_cols=406  Identities=14%  Similarity=0.115  Sum_probs=226.4

Q ss_pred             CChhhHHHHhhhcC--CCChHHHHHHHHH--HHccCChhhHHHHHHHHHHcCCCCCcchHHHHHHHhhchhcHHHHHHHH
Q 039362           11 GNIDYSCKVLSHLS--NPRIFYWNTVIRG--YSKSKNPNKSISLFVKMLRAGVSPDHLTYPFLAKASGRLAKRELAVAVH   86 (440)
Q Consensus        11 g~~~~A~~~~~~~~--~~~~~~~~~l~~~--~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~   86 (440)
                      +++..|....+++.  .||.. |...+.+  +.+.|+.++|..+++.....+.. |..|...+-.+|...++.++|..+|
T Consensus        23 ~qfkkal~~~~kllkk~Pn~~-~a~vLkaLsl~r~gk~~ea~~~Le~~~~~~~~-D~~tLq~l~~~y~d~~~~d~~~~~Y  100 (932)
T KOG2053|consen   23 SQFKKALAKLGKLLKKHPNAL-YAKVLKALSLFRLGKGDEALKLLEALYGLKGT-DDLTLQFLQNVYRDLGKLDEAVHLY  100 (932)
T ss_pred             HHHHHHHHHHHHHHHHCCCcH-HHHHHHHHHHHHhcCchhHHHHHhhhccCCCC-chHHHHHHHHHHHHHhhhhHHHHHH
Confidence            67777777777665  34432 3333333  56788888888888877655433 7777888888888888899999999


Q ss_pred             HHHHHcCCCCcHHHHHHHHHHHHhcCCHHH----HHHHhhCCCCCchhhHHHHHHHHHhc-CC---------hHHHHHHH
Q 039362           87 AQIAKTGYESDLFISNSLIHMYGSCGDIVY----AREVFDGMPTKMSVSWNSMLDGYAKC-GE---------MNMARQVF  152 (440)
Q Consensus        87 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~----a~~~~~~~~~~~~~~~~~l~~~~~~~-~~---------~~~a~~~~  152 (440)
                      ++..+..  |+......+..+|.+.+++.+    |.++++..+++--.-|+ +++.+.+. ..         ..-|.+.+
T Consensus       101 e~~~~~~--P~eell~~lFmayvR~~~yk~qQkaa~~LyK~~pk~~yyfWs-V~Slilqs~~~~~~~~~~i~l~LA~~m~  177 (932)
T KOG2053|consen  101 ERANQKY--PSEELLYHLFMAYVREKSYKKQQKAALQLYKNFPKRAYYFWS-VISLILQSIFSENELLDPILLALAEKMV  177 (932)
T ss_pred             HHHHhhC--CcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCcccchHHH-HHHHHHHhccCCcccccchhHHHHHHHH
Confidence            8887753  457777777778888776554    66677766554443443 33333221 11         22344555


Q ss_pred             hhCCCCc--hhh---HHHHHHHHHhcCCHHHHHHHHH-HHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCC
Q 039362          153 ELMPERN--VVS---WSALIDGYVKCGDYKEALVIFE-EMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGL  226 (440)
Q Consensus       153 ~~~~~~~--~~~---~~~l~~~~~~~~~~~~a~~~~~-~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  226 (440)
                      +.+.+.+  ..+   ...-...+-..|++++|.+++. ...+.-...+...-+.-+..+...+++.+..++-.++...+ 
T Consensus       178 ~~~l~~~gk~~s~aE~~Lyl~iL~~~~k~~eal~~l~~~la~~l~~~~~~l~~~~~dllk~l~~w~~l~~l~~~Ll~k~-  256 (932)
T KOG2053|consen  178 QKLLEKKGKIESEAEIILYLLILELQGKYQEALEFLAITLAEKLTSANLYLENKKLDLLKLLNRWQELFELSSRLLEKG-  256 (932)
T ss_pred             HHHhccCCccchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhccccchHHHHHHHHHHHHhcChHHHHHHHHHHHHhC-
Confidence            5554422  111   1111233445777888888883 33333333344444556666777788888888888888776 


Q ss_pred             CCchhhHHHHHHHHH----------------hcCCHHHHHHHHhhhhhcCCchhhHHHHHHHH---HhcCChHHHHHHHH
Q 039362          227 SLTLPLQTSLIDMYA----------------KCGAIKEALIVFHGVEKHQSDVLIWNAMIGGL---AMHGFVKESLELFT  287 (440)
Q Consensus       227 ~~~~~~~~~l~~~~~----------------~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~---~~~~~~~~a~~~~~  287 (440)
                      +.|   |...+..+.                ..+..+...+...+..+. .....|-+-+.+.   ...|+.+++...|-
T Consensus       257 ~Dd---y~~~~~sv~klLe~~~~~~a~~~~s~~~~l~~~~ek~~~~i~~-~~Rgp~LA~lel~kr~~~~gd~ee~~~~y~  332 (932)
T KOG2053|consen  257 NDD---YKIYTDSVFKLLELLNKEPAEAAHSLSKSLDECIEKAQKNIGS-KSRGPYLARLELDKRYKLIGDSEEMLSYYF  332 (932)
T ss_pred             Ccc---hHHHHHHHHHHHHhcccccchhhhhhhhhHHHHHHHHHHhhcc-cccCcHHHHHHHHHHhcccCChHHHHHHHH
Confidence            333   222222111                112222333333332221 0111222222222   23466666554443


Q ss_pred             HHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCCcc----h---HHHHHHHHHhcCC-----HHHHHHH
Q 039362          288 EMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSE----H---YACMVDALSRAGQ-----VTEAYEF  355 (440)
Q Consensus       288 ~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~----~---~~~l~~~~~~~~~-----~~~a~~~  355 (440)
                      +  +.|-.|   .+..=+..|...=..++-..++......  .++..    .   +...+..-.-.|.     .+.-..+
T Consensus       333 ~--kfg~kp---cc~~Dl~~yl~~l~~~q~~~l~~~l~~~--~~~~s~~~k~l~~h~c~l~~~rl~G~~~~l~ad~i~a~  405 (932)
T KOG2053|consen  333 K--KFGDKP---CCAIDLNHYLGHLNIDQLKSLMSKLVLA--DDDSSGDEKVLQQHLCVLLLLRLLGLYEKLPADSILAY  405 (932)
T ss_pred             H--HhCCCc---HhHhhHHHhhccCCHHHHHHHHHHhhcc--CCcchhhHHHHHHHHHHHHHHHHhhccccCChHHHHHH
Confidence            3  223233   2233333344333444555555555443  12221    0   2222232233342     1222333


Q ss_pred             HhcC------C------CCccH---------hHHHHHHHHHHhcCCh---hHHHHHHHHHHhcCCCCCchHHHHHHHHHh
Q 039362          356 ICQM------P------LEPTA---------SMLGSLLTGCMNHGKL---DLAEIVGKKLVELQPDHDGRYVGLSNVYAI  411 (440)
Q Consensus       356 ~~~~------~------~~p~~---------~~~~~l~~~~~~~g~~---~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~  411 (440)
                      +.+.      +      .-|..         -+.+.|+..+.+.++.   -+|+-+++......|.|..+-..++..|.-
T Consensus       406 ~~kl~~~ye~gls~~K~ll~TE~~~g~~~llLav~~Lid~~rktnd~~~l~eaI~LLE~glt~s~hnf~~KLlLiriY~~  485 (932)
T KOG2053|consen  406 VRKLKLTYEKGLSLSKDLLPTEYSFGDELLLLAVNHLIDLWRKTNDLTDLFEAITLLENGLTKSPHNFQTKLLLIRIYSY  485 (932)
T ss_pred             HHHHHHHHhccccccccccccccccHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHhhcCCccHHHHHHHHHHHHH
Confidence            3221      1      12211         2345667777777764   578888899889999999999999999999


Q ss_pred             ccChHHHHHHHHHHHhcCCccC
Q 039362          412 FKRWDEARTTREAMETRGVKKY  433 (440)
Q Consensus       412 ~g~~~~A~~~~~~~~~~~~~~~  433 (440)
                      .|-+..|.++++.+--++++.+
T Consensus       486 lGa~p~a~~~y~tLdIK~IQ~D  507 (932)
T KOG2053|consen  486 LGAFPDAYELYKTLDIKNIQTD  507 (932)
T ss_pred             hcCChhHHHHHHhcchHHhhhc
Confidence            9999999999998876666544

>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=98.44  E-value=1.6e-05  Score=69.84  Aligned_cols=123  Identities=13%  Similarity=0.124  Sum_probs=72.7

Q ss_pred             HHHHHHHHhcCChHHHHHHHhhCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChH
Q 039362          133 NSMLDGYAKCGEMNMARQVFELMPERNVVSWSALIDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALD  212 (440)
Q Consensus       133 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  212 (440)
                      ..|+..+...++++.|+++|+++.+.++.....++..+...++-.+|.+++++..... +.+...+..-...+.+.++++
T Consensus       173 ~~Ll~~l~~t~~~~~ai~lle~L~~~~pev~~~LA~v~l~~~~E~~AI~ll~~aL~~~-p~d~~LL~~Qa~fLl~k~~~~  251 (395)
T PF09295_consen  173 DTLLKYLSLTQRYDEAIELLEKLRERDPEVAVLLARVYLLMNEEVEAIRLLNEALKEN-PQDSELLNLQAEFLLSKKKYE  251 (395)
T ss_pred             HHHHHHHhhcccHHHHHHHHHHHHhcCCcHHHHHHHHHHhcCcHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCCHH
Confidence            3445555555666666666666666555555556666666666666666666665442 334444444455556666666


Q ss_pred             HHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHhhhh
Q 039362          213 QGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVE  257 (440)
Q Consensus       213 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  257 (440)
                      .|..+.+++.+.. |.+-.+|..|..+|...|+++.|+..+..++
T Consensus       252 lAL~iAk~av~ls-P~~f~~W~~La~~Yi~~~d~e~ALlaLNs~P  295 (395)
T PF09295_consen  252 LALEIAKKAVELS-PSEFETWYQLAECYIQLGDFENALLALNSCP  295 (395)
T ss_pred             HHHHHHHHHHHhC-chhHHHHHHHHHHHHhcCCHHHHHHHHhcCc
Confidence            6666666666554 4445566666666666666666666665554

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

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

Probab=98.41  E-value=3.7e-05  Score=58.33  Aligned_cols=124  Identities=13%  Similarity=0.140  Sum_probs=60.5

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCC---HHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCc--hhhHHHHH
Q 039362          163 WSALIDGYVKCGDYKEALVIFEEMRDVGSKAN---EVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLT--LPLQTSLI  237 (440)
Q Consensus       163 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~  237 (440)
                      |..++..+ ..++...+...++.+.... +.+   ......+...+...|++++|...|+.+......+.  ......+.
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            33333333 3556666666666665542 112   12222334455556666666666666665441121  11233345


Q ss_pred             HHHHhcCCHHHHHHHHhhhhhcCCchhhHHHHHHHHHhcCChHHHHHHHHH
Q 039362          238 DMYAKCGAIKEALIVFHGVEKHQSDVLIWNAMIGGLAMHGFVKESLELFTE  288 (440)
Q Consensus       238 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  288 (440)
                      .++...|++++|+..++.+.........+......+.+.|++++|...|+.
T Consensus        93 ~~~~~~~~~d~Al~~L~~~~~~~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~  143 (145)
T PF09976_consen   93 RILLQQGQYDEALATLQQIPDEAFKALAAELLGDIYLAQGDYDEARAAYQK  143 (145)
T ss_pred             HHHHHcCCHHHHHHHHHhccCcchHHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            555555666666655554432222334444455555555555555555543

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

Probab=98.39  E-value=2.9e-05  Score=58.92  Aligned_cols=85  Identities=21%  Similarity=0.078  Sum_probs=33.7

Q ss_pred             HHHHcCCChHHHHHHHHHHhhcCCCCC--cchHHHHHHHHHhcCCHHHHHHHHhcCC-CCccHhHHHHHHHHHHhcCChh
Q 039362          306 SACAHGGLVMEAWYFFKSLGKRGMVPK--SEHYACMVDALSRAGQVTEAYEFICQMP-LEPTASMLGSLLTGCMNHGKLD  382 (440)
Q Consensus       306 ~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~-~~p~~~~~~~l~~~~~~~g~~~  382 (440)
                      ..+...|++++|...|+.+......|+  ......+...+...|++++|+..++... .......+......+...|+++
T Consensus        56 ~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l~LA~~~~~~~~~d~Al~~L~~~~~~~~~~~~~~~~Gdi~~~~g~~~  135 (145)
T PF09976_consen   56 KAAYEQGDYDEAKAALEKALANAPDPELKPLARLRLARILLQQGQYDEALATLQQIPDEAFKALAAELLGDIYLAQGDYD  135 (145)
T ss_pred             HHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHhccCcchHHHHHHHHHHHHHHCCCHH
Confidence            344444555555555555544331111  0112223344444444444444444331 1112223333344444444444


Q ss_pred             HHHHHHHH
Q 039362          383 LAEIVGKK  390 (440)
Q Consensus       383 ~a~~~~~~  390 (440)
                      +|...|++
T Consensus       136 ~A~~~y~~  143 (145)
T PF09976_consen  136 EARAAYQK  143 (145)
T ss_pred             HHHHHHHH
Confidence            44444443

>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=98.35  E-value=6e-06  Score=57.62  Aligned_cols=94  Identities=23%  Similarity=0.276  Sum_probs=76.5

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHhcC-CCCcc-HhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCCchHHHHHHHHHhcc
Q 039362          336 YACMVDALSRAGQVTEAYEFICQM-PLEPT-ASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFK  413 (440)
Q Consensus       336 ~~~l~~~~~~~~~~~~a~~~~~~~-~~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  413 (440)
                      +..+...+...|++++|...+++. ...|+ ...+..+...+...|++++|...++++.+..|.++..+..++.++...|
T Consensus         3 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   82 (100)
T cd00189           3 LLNLGNLYYKLGDYDEALEYYEKALELDPDNADAYYNLAAAYYKLGKYEEALEDYEKALELDPDNAKAYYNLGLAYYKLG   82 (100)
T ss_pred             HHHHHHHHHHHhcHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcchhHHHHHHHHHHHHH
Confidence            455667777888888888888876 44443 3667777888888899999999999999998888888889999999999


Q ss_pred             ChHHHHHHHHHHHhcC
Q 039362          414 RWDEARTTREAMETRG  429 (440)
Q Consensus       414 ~~~~A~~~~~~~~~~~  429 (440)
                      ++++|...+++..+.+
T Consensus        83 ~~~~a~~~~~~~~~~~   98 (100)
T cd00189          83 KYEEALEAYEKALELD   98 (100)
T ss_pred             hHHHHHHHHHHHHccC
Confidence            9999999998877644

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

Probab=98.35  E-value=3.5e-07  Score=61.98  Aligned_cols=78  Identities=21%  Similarity=0.298  Sum_probs=45.2

Q ss_pred             cCCHHHHHHHHhcC-CCCc---cHhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCCchHHHHHHHHHhccChHHHHHH
Q 039362          346 AGQVTEAYEFICQM-PLEP---TASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEARTT  421 (440)
Q Consensus       346 ~~~~~~a~~~~~~~-~~~p---~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  421 (440)
                      .|+++.|+.+++++ ...|   +...+..+..++.+.|++++|..++++ .+.+|.+......++.++.+.|++++|++.
T Consensus         2 ~~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~~~~~~~~~~~~l~a~~~~~l~~y~eAi~~   80 (84)
T PF12895_consen    2 QGNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-LKLDPSNPDIHYLLARCLLKLGKYEEAIKA   80 (84)
T ss_dssp             TT-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-HTHHHCHHHHHHHHHHHHHHTT-HHHHHHH
T ss_pred             CccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-hCCCCCCHHHHHHHHHHHHHhCCHHHHHHH
Confidence            35566666666665 2222   334444566666666777777666666 555555555555556667777777777766


Q ss_pred             HHH
Q 039362          422 REA  424 (440)
Q Consensus       422 ~~~  424 (440)
                      +++
T Consensus        81 l~~   83 (84)
T PF12895_consen   81 LEK   83 (84)
T ss_dssp             HHH
T ss_pred             Hhc
Confidence            654

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=98.35  E-value=6.5e-06  Score=60.28  Aligned_cols=59  Identities=17%  Similarity=0.090  Sum_probs=27.2

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHhcCCCC---CchHHHHHHHHHhccChHHHHHHHHHHHhc
Q 039362          370 SLLTGCMNHGKLDLAEIVGKKLVELQPDH---DGRYVGLSNVYAIFKRWDEARTTREAMETR  428 (440)
Q Consensus       370 ~l~~~~~~~g~~~~a~~~~~~~~~~~~~~---~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  428 (440)
                      .+..++.+.|+++.|...++.+....|.+   +.++..++.++...|++++|...++++.+.
T Consensus        44 ~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~  105 (119)
T TIGR02795        44 WLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLGMSLQELGDKEKAKATLQQVIKR  105 (119)
T ss_pred             HHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHHHHHHHhCChHHHHHHHHHHHHH
Confidence            34444444444444555555444444332   223444444444445555555554444443

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.

>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=98.34  E-value=1.5e-06  Score=56.36  Aligned_cols=66  Identities=21%  Similarity=0.191  Sum_probs=60.3

Q ss_pred             cHhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCCchHHHHHHHHHhcc-ChHHHHHHHHHHHhcC
Q 039362          364 TASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFK-RWDEARTTREAMETRG  429 (440)
Q Consensus       364 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-~~~~A~~~~~~~~~~~  429 (440)
                      ++.+|..+...+...|++++|+..|+++++.+|.++.++..++.+|...| ++++|.+.+++.++..
T Consensus         2 ~a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~l~   68 (69)
T PF13414_consen    2 NAEAWYNLGQIYFQQGDYEEAIEYFEKAIELDPNNAEAYYNLGLAYMKLGKDYEEAIEDFEKALKLD   68 (69)
T ss_dssp             SHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHSTTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhCccHHHHHHHHHHHHHcC
Confidence            45778889999999999999999999999999999999999999999999 7999999999887653

...

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.31  E-value=1.3e-06  Score=47.74  Aligned_cols=34  Identities=35%  Similarity=0.661  Sum_probs=29.7

Q ss_pred             HHHHHHHHHHccCChhhHHHHHHHHHHcCCCCCc
Q 039362           30 YWNTVIRGYSKSKNPNKSISLFVKMLRAGVSPDH   63 (440)
Q Consensus        30 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~   63 (440)
                      +||.+|.+|++.|++++|.++|++|.+.|+.||.
T Consensus         2 ~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~~   35 (35)
T TIGR00756         2 TYNTLIDGLCKAGRVEEALELFKEMLERGIEPDV   35 (35)
T ss_pred             cHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCC
Confidence            6888999999999999999999999988888873

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.

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=98.29  E-value=0.0017  Score=55.33  Aligned_cols=251  Identities=16%  Similarity=0.169  Sum_probs=143.4

Q ss_pred             HhcCCHHHHHHHHHHHHhcCCCCCHHH--HHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHH
Q 039362          171 VKCGDYKEALVIFEEMRDVGSKANEVT--LVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKE  248 (440)
Q Consensus       171 ~~~~~~~~a~~~~~~~~~~~~~~~~~~--~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  248 (440)
                      .-.|+++.|.+-|+.|..   .|....  +..|.-...+.|+.+.|..+-+..-..- +.-.-.....+...+..|+|+.
T Consensus       131 l~eG~~~~Ar~kfeAMl~---dPEtRllGLRgLyleAqr~GareaAr~yAe~Aa~~A-p~l~WA~~AtLe~r~~~gdWd~  206 (531)
T COG3898         131 LLEGDYEDARKKFEAMLD---DPETRLLGLRGLYLEAQRLGAREAARHYAERAAEKA-PQLPWAARATLEARCAAGDWDG  206 (531)
T ss_pred             HhcCchHHHHHHHHHHhc---ChHHHHHhHHHHHHHHHhcccHHHHHHHHHHHHhhc-cCCchHHHHHHHHHHhcCChHH
Confidence            345777777777777764   222211  1222222345677777777666665543 3334455667777777777777


Q ss_pred             HHHHHhhhhhc---CCchhh--HHHHHHHHH---hcCChHHHHHHHHHHHHcCCCccHh-hHHHHHHHHHcCCChHHHHH
Q 039362          249 ALIVFHGVEKH---QSDVLI--WNAMIGGLA---MHGFVKESLELFTEMQIVGITPDEI-TFLGLLSACAHGGLVMEAWY  319 (440)
Q Consensus       249 A~~~~~~~~~~---~~~~~~--~~~l~~~~~---~~~~~~~a~~~~~~m~~~~~~p~~~-~~~~l~~~~~~~~~~~~a~~  319 (440)
                      |+++++.-...   .++..-  --.|+.+-.   -..+...|...-.+..+  +.||.. .-.....++.+.|+..++-.
T Consensus       207 AlkLvd~~~~~~vie~~~aeR~rAvLLtAkA~s~ldadp~~Ar~~A~~a~K--L~pdlvPaav~AAralf~d~~~rKg~~  284 (531)
T COG3898         207 ALKLVDAQRAAKVIEKDVAERSRAVLLTAKAMSLLDADPASARDDALEANK--LAPDLVPAAVVAARALFRDGNLRKGSK  284 (531)
T ss_pred             HHHHHHHHHHHHhhchhhHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHhh--cCCccchHHHHHHHHHHhccchhhhhh
Confidence            77777665432   333221  112222111   11234445554444433  355543 23334566778888888888


Q ss_pred             HHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcC----CCCccH-hHHHHHHHHHHhcCChhHHHHHHHHHHhc
Q 039362          320 FFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQM----PLEPTA-SMLGSLLTGCMNHGKLDLAEIVGKKLVEL  394 (440)
Q Consensus       320 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~----~~~p~~-~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  394 (440)
                      +++.+-+..  |.+.++    ..|.+..--+.++.-+++.    .++||. .....+..+....|++..|..--+.+...
T Consensus       285 ilE~aWK~e--PHP~ia----~lY~~ar~gdta~dRlkRa~~L~slk~nnaes~~~va~aAlda~e~~~ARa~Aeaa~r~  358 (531)
T COG3898         285 ILETAWKAE--PHPDIA----LLYVRARSGDTALDRLKRAKKLESLKPNNAESSLAVAEAALDAGEFSAARAKAEAAARE  358 (531)
T ss_pred             HHHHHHhcC--CChHHH----HHHHHhcCCCcHHHHHHHHHHHHhcCccchHHHHHHHHHHHhccchHHHHHHHHHHhhh
Confidence            888887764  443333    2333333333444444433    455544 55666777777888888888888887777


Q ss_pred             CCCCCchHHHHHHHHHhc-cChHHHHHHHHHHHhcCCccCCCC
Q 039362          395 QPDHDGRYVGLSNVYAIF-KRWDEARTTREAMETRGVKKYPGW  436 (440)
Q Consensus       395 ~~~~~~~~~~l~~~~~~~-g~~~~A~~~~~~~~~~~~~~~~~~  436 (440)
                      .|... +|..+.+.-... |+-.+++..+-+.++.  +.+|.|
T Consensus       359 ~pres-~~lLlAdIeeAetGDqg~vR~wlAqav~A--PrdPaW  398 (531)
T COG3898         359 APRES-AYLLLADIEEAETGDQGKVRQWLAQAVKA--PRDPAW  398 (531)
T ss_pred             Cchhh-HHHHHHHHHhhccCchHHHHHHHHHHhcC--CCCCcc
Confidence            77653 666666665544 8888888888776664  344543

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=98.29  E-value=1.3e-05  Score=58.61  Aligned_cols=103  Identities=13%  Similarity=0.073  Sum_probs=69.1

Q ss_pred             hHHHHHHHHHcCCChHHHHHHHHHHhhcCCC--CCcchHHHHHHHHHhcCCHHHHHHHHhcC-CCCcc----HhHHHHHH
Q 039362          300 TFLGLLSACAHGGLVMEAWYFFKSLGKRGMV--PKSEHYACMVDALSRAGQVTEAYEFICQM-PLEPT----ASMLGSLL  372 (440)
Q Consensus       300 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p~----~~~~~~l~  372 (440)
                      ++..+...+.+.|++++|...|..+......  .....+..+...+.+.|++++|...++.+ ...|+    ...+..+.
T Consensus         4 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~   83 (119)
T TIGR02795         4 AYYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLG   83 (119)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHH
Confidence            3445555666677777777777777664211  01234555677777777777777777776 33333    34566777


Q ss_pred             HHHHhcCChhHHHHHHHHHHhcCCCCCchH
Q 039362          373 TGCMNHGKLDLAEIVGKKLVELQPDHDGRY  402 (440)
Q Consensus       373 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~  402 (440)
                      .++.+.|++++|...++++++..|+++.+.
T Consensus        84 ~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~  113 (119)
T TIGR02795        84 MSLQELGDKEKAKATLQQVIKRYPGSSAAK  113 (119)
T ss_pred             HHHHHhCChHHHHHHHHHHHHHCcCChhHH
Confidence            778888888888888888888888876543

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.

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=98.29  E-value=0.00018  Score=61.47  Aligned_cols=335  Identities=11%  Similarity=-0.066  Sum_probs=181.5

Q ss_pred             HhhchhcHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhcCCHHHHHHHhhCCCC---CchhhHHHHHHHHHhcCChHHH
Q 039362           72 ASGRLAKRELAVAVHAQIAKTGYESDLFISNSLIHMYGSCGDIVYAREVFDGMPT---KMSVSWNSMLDGYAKCGEMNMA  148 (440)
Q Consensus        72 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a  148 (440)
                      .+.+..++..|+..+...++..+. +...|..-+..+...|+++.|.--.+.-.+   .......-.-+++...++..+|
T Consensus        58 ~~yk~k~Y~nal~~yt~Ai~~~pd-~a~yy~nRAa~~m~~~~~~~a~~dar~~~r~kd~~~k~~~r~~~c~~a~~~~i~A  136 (486)
T KOG0550|consen   58 AFYKQKTYGNALKNYTFAIDMCPD-NASYYSNRAATLMMLGRFEEALGDARQSVRLKDGFSKGQLREGQCHLALSDLIEA  136 (486)
T ss_pred             hHHHHhhHHHHHHHHHHHHHhCcc-chhhhchhHHHHHHHHhHhhcccchhhheecCCCccccccchhhhhhhhHHHHHH
Confidence            345666777888888888887644 455666666666667777766554433322   1222333334444444555555


Q ss_pred             HHHHhhCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCC-CCCHHHHHHHH-HHHHhcCChHHHHHHHHHHHHcCC
Q 039362          149 RQVFELMPERNVVSWSALIDGYVKCGDYKEALVIFEEMRDVGS-KANEVTLVSVL-CACAHLGALDQGRMMLRYMIDKGL  226 (440)
Q Consensus       149 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~-~~~~~~~~~~~a~~~~~~~~~~~~  226 (440)
                      .+.++     +...+           ....++..++....... +|.-.++..+- .++...|+.++|.++--.+++.. 
T Consensus       137 ~~~~~-----~~~~~-----------~~anal~~~~~~~~s~s~~pac~~a~~lka~cl~~~~~~~~a~~ea~~ilkld-  199 (486)
T KOG0550|consen  137 EEKLK-----SKQAY-----------KAANALPTLEKLAPSHSREPACFKAKLLKAECLAFLGDYDEAQSEAIDILKLD-  199 (486)
T ss_pred             HHHhh-----hhhhh-----------HHhhhhhhhhcccccccCCchhhHHHHhhhhhhhhcccchhHHHHHHHHHhcc-
Confidence            55544     11111           12233333444333322 23334444433 34567788888888877777665 


Q ss_pred             CCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCCchhh-------------HHHHHHHHHhcCChHHHHHHHHHHHHc-
Q 039362          227 SLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQSDVLI-------------WNAMIGGLAMHGFVKESLELFTEMQIV-  292 (440)
Q Consensus       227 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~-------------~~~l~~~~~~~~~~~~a~~~~~~m~~~-  292 (440)
                      ..+......=..++.-.++.+.|...|++.....|+-..             +..-..-..+.|++..|.+.+.+.+.. 
T Consensus       200 ~~n~~al~vrg~~~yy~~~~~ka~~hf~qal~ldpdh~~sk~~~~~~k~le~~k~~gN~~fk~G~y~~A~E~Yteal~id  279 (486)
T KOG0550|consen  200 ATNAEALYVRGLCLYYNDNADKAINHFQQALRLDPDHQKSKSASMMPKKLEVKKERGNDAFKNGNYRKAYECYTEALNID  279 (486)
T ss_pred             cchhHHHHhcccccccccchHHHHHHHhhhhccChhhhhHHhHhhhHHHHHHHHhhhhhHhhccchhHHHHHHHHhhcCC
Confidence            333333333334455677888888888888876665432             222233456778888888888887653 


Q ss_pred             --CCCccHhhHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCC-cchHHHHHHHHHhcCCHHHHHHHHhcC-CCCccH---
Q 039362          293 --GITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPK-SEHYACMVDALSRAGQVTEAYEFICQM-PLEPTA---  365 (440)
Q Consensus       293 --~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p~~---  365 (440)
                        +..|+...|.....+..+.|+..+|+.--+...+..  |. ...|..-..++...++|++|.+-+++. ....+.   
T Consensus       280 P~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al~iD--~syikall~ra~c~l~le~~e~AV~d~~~a~q~~~s~e~r  357 (486)
T KOG0550|consen  280 PSNKKTNAKLYGNRALVNIRLGRLREAISDCNEALKID--SSYIKALLRRANCHLALEKWEEAVEDYEKAMQLEKDCEIR  357 (486)
T ss_pred             ccccchhHHHHHHhHhhhcccCCchhhhhhhhhhhhcC--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccchH
Confidence              234445556666666777888888888777776632  21 122333344556677888888888876 323232   


Q ss_pred             hHHHHHHHHHHhcCChhHHHHHHHHHHhc-CCCCCchHHHHHHHHH---hccChHHHHHHHHHHHh
Q 039362          366 SMLGSLLTGCMNHGKLDLAEIVGKKLVEL-QPDHDGRYVGLSNVYA---IFKRWDEARTTREAMET  427 (440)
Q Consensus       366 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-~~~~~~~~~~l~~~~~---~~g~~~~A~~~~~~~~~  427 (440)
                      .++.....++-+..+.+. ..++--.... ..+....|..+..++.   ..|.-.+|...|++.-+
T Consensus       358 ~~l~~A~~aLkkSkRkd~-ykilGi~~~as~~eikkayrk~AL~~Hpd~~agsq~eaE~kFkevge  422 (486)
T KOG0550|consen  358 RTLREAQLALKKSKRKDW-YKILGISRNASDDEIKKAYRKLALVHHPDKNAGSQKEAEAKFKEVGE  422 (486)
T ss_pred             HHHHHHHHHHHHhhhhhH-HHHhhhhhhcccchhhhHHHHHHHHhCCCcCcchhHHHHHHHHHHHH
Confidence            333333333333322211 1111111111 1222335555555442   24555677777766643

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.29  E-value=1.4e-06  Score=47.18  Aligned_cols=33  Identities=30%  Similarity=0.659  Sum_probs=26.1

Q ss_pred             HHHHHHHHHHHccCChhhHHHHHHHHHHcCCCC
Q 039362           29 FYWNTVIRGYSKSKNPNKSISLFVKMLRAGVSP   61 (440)
Q Consensus        29 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~   61 (440)
                      .+|+.++.+|++.|+++.|.++|++|.+.|++|
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            577888888888888888888888888777776

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=98.28  E-value=2.6e-06  Score=54.47  Aligned_cols=60  Identities=20%  Similarity=0.166  Sum_probs=51.4

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHhcCCCCCchHHHHHHHHHhccChHHHHHHHHHHHhcCC
Q 039362          371 LLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEARTTREAMETRGV  430 (440)
Q Consensus       371 l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  430 (440)
                      +...+...|++++|+..|+++++..|.++..+..++.++...|++++|...++++++...
T Consensus         3 ~a~~~~~~g~~~~A~~~~~~~l~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~P   62 (65)
T PF13432_consen    3 LARALYQQGDYDEAIAAFEQALKQDPDNPEAWYLLGRILYQQGRYDEALAYYERALELDP   62 (65)
T ss_dssp             HHHHHHHCTHHHHHHHHHHHHHCCSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHST
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCc
Confidence            456778899999999999999999999999999999999999999999999998877543

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=98.26  E-value=1.9e-05  Score=64.87  Aligned_cols=109  Identities=14%  Similarity=0.059  Sum_probs=91.4

Q ss_pred             CCcchHHHHHHHHHhcCCHHHHHHHHhcC-CCCc-cHhHHHHHHHHHHh---cCChhHHHHHHHHHHhcCCCCCchHHHH
Q 039362          331 PKSEHYACMVDALSRAGQVTEAYEFICQM-PLEP-TASMLGSLLTGCMN---HGKLDLAEIVGKKLVELQPDHDGRYVGL  405 (440)
Q Consensus       331 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~---~g~~~~a~~~~~~~~~~~~~~~~~~~~l  405 (440)
                      -|...|..|...|...|++..|..-|.+. .+.| ++..+..+..++..   .....++..++++++..+|.+..+...|
T Consensus       154 ~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D~~~iral~lL  233 (287)
T COG4235         154 GDAEGWDLLGRAYMALGRASDALLAYRNALRLAGDNPEILLGLAEALYYQAGQQMTAKARALLRQALALDPANIRALSLL  233 (287)
T ss_pred             CCchhHHHHHHHHHHhcchhHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcCCccHHHHHHH
Confidence            47888999999999999999999999988 4444 45666667666553   2346789999999999999999999999


Q ss_pred             HHHHHhccChHHHHHHHHHHHhcCCccCCCCCCC
Q 039362          406 SNVYAIFKRWDEARTTREAMETRGVKKYPGWSFV  439 (440)
Q Consensus       406 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~  439 (440)
                      +..++..|++.+|...++.|++.....+|..+-|
T Consensus       234 A~~afe~g~~~~A~~~Wq~lL~~lp~~~~rr~~i  267 (287)
T COG4235         234 AFAAFEQGDYAEAAAAWQMLLDLLPADDPRRSLI  267 (287)
T ss_pred             HHHHHHcccHHHHHHHHHHHHhcCCCCCchHHHH
Confidence            9999999999999999999999988777765544

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=98.24  E-value=0.004  Score=57.30  Aligned_cols=201  Identities=12%  Similarity=0.073  Sum_probs=108.0

Q ss_pred             CCChHHHHHHHHHHHccCChhhHHHHHHHHHHcCCCCCcchHHHHHH----------HhhchhcHHHHHHHHHHHHHcCC
Q 039362           25 NPRIFYWNTVIRGYSKSKNPNKSISLFVKMLRAGVSPDHLTYPFLAK----------ASGRLAKRELAVAVHAQIAKTGY   94 (440)
Q Consensus        25 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~----------~~~~~~~~~~a~~~~~~~~~~~~   94 (440)
                      .|.+..|..+.......-.++.|...|-+...-   |.......|-.          .-+--|++++|.++|-++-..+ 
T Consensus       689 nPHprLWrllAe~Al~Kl~l~tAE~AFVrc~dY---~Gik~vkrl~~i~s~~~q~aei~~~~g~feeaek~yld~drrD-  764 (1189)
T KOG2041|consen  689 NPHPRLWRLLAEYALFKLALDTAEHAFVRCGDY---AGIKLVKRLRTIHSKEQQRAEISAFYGEFEEAEKLYLDADRRD-  764 (1189)
T ss_pred             CCchHHHHHHHHHHHHHHhhhhHhhhhhhhccc---cchhHHHHhhhhhhHHHHhHhHhhhhcchhHhhhhhhccchhh-
Confidence            466678888877777777777777766655432   11111111111          1122367777777776664432 


Q ss_pred             CCcHHHHHHHHHHHHhcCCHHHHHHHhhCCCCC-----chhhHHHHHHHHHhcCChHHHHHHHhhCCCCchhhHHHHHHH
Q 039362           95 ESDLFISNSLIHMYGSCGDIVYAREVFDGMPTK-----MSVSWNSMLDGYAKCGEMNMARQVFELMPERNVVSWSALIDG  169 (440)
Q Consensus        95 ~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~  169 (440)
                              ..+..+.+.||+-...++++.-...     -...|+.+...+.....|++|.+.|......     ...+.+
T Consensus       765 --------LAielr~klgDwfrV~qL~r~g~~d~dD~~~e~A~r~ig~~fa~~~~We~A~~yY~~~~~~-----e~~~ec  831 (1189)
T KOG2041|consen  765 --------LAIELRKKLGDWFRVYQLIRNGGSDDDDEGKEDAFRNIGETFAEMMEWEEAAKYYSYCGDT-----ENQIEC  831 (1189)
T ss_pred             --------hhHHHHHhhhhHHHHHHHHHccCCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccch-----HhHHHH
Confidence                    2355666777777777777654321     1235777777777777777777776655321     123445


Q ss_pred             HHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHH
Q 039362          170 YVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEA  249 (440)
Q Consensus       170 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  249 (440)
                      +.+..++++-..+-..+     +-+....-.+...+.+.|.-++|.+.+-+   .+. |     ...+..+...++|.+|
T Consensus       832 ly~le~f~~LE~la~~L-----pe~s~llp~~a~mf~svGMC~qAV~a~Lr---~s~-p-----kaAv~tCv~LnQW~~a  897 (1189)
T KOG2041|consen  832 LYRLELFGELEVLARTL-----PEDSELLPVMADMFTSVGMCDQAVEAYLR---RSL-P-----KAAVHTCVELNQWGEA  897 (1189)
T ss_pred             HHHHHhhhhHHHHHHhc-----CcccchHHHHHHHHHhhchHHHHHHHHHh---ccC-c-----HHHHHHHHHHHHHHHH
Confidence            55555555444433332     33444455556666666666666555432   221 1     1233445555566666


Q ss_pred             HHHHhhh
Q 039362          250 LIVFHGV  256 (440)
Q Consensus       250 ~~~~~~~  256 (440)
                      .++-++.
T Consensus       898 velaq~~  904 (1189)
T KOG2041|consen  898 VELAQRF  904 (1189)
T ss_pred             HHHHHhc
Confidence            5555443

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=98.23  E-value=0.0028  Score=55.20  Aligned_cols=405  Identities=10%  Similarity=0.052  Sum_probs=217.1

Q ss_pred             HHHhhhcC--CCChHHHHHHHHHHHccCChhhHHHHHHHHHHcCCCCCcchHHHHHHHhhchhcHHHHHHHHHHHHHcCC
Q 039362           17 CKVLSHLS--NPRIFYWNTVIRGYSKSKNPNKSISLFVKMLRAGVSPDHLTYPFLAKASGRLAKRELAVAVHAQIAKTGY   94 (440)
Q Consensus        17 ~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~   94 (440)
                      +++-+++.  +.|+.+|-.|+.-+...|..++..+++++|..- .+--+.+|..-+..-...+++..+..+|.+.+....
T Consensus        29 lrLRerIkdNPtnI~S~fqLiq~~~tq~s~~~~re~yeq~~~p-fp~~~~aw~ly~s~ELA~~df~svE~lf~rCL~k~l  107 (660)
T COG5107          29 LRLRERIKDNPTNILSYFQLIQYLETQESMDAEREMYEQLSSP-FPIMEHAWRLYMSGELARKDFRSVESLFGRCLKKSL  107 (660)
T ss_pred             HHHHHHhhcCchhHHHHHHHHHHHhhhhhHHHHHHHHHHhcCC-CccccHHHHHHhcchhhhhhHHHHHHHHHHHHhhhc
Confidence            35556665  567889999999999999999999999999763 233455688888877778899999999999988654


Q ss_pred             CCcHHHHHHHHHHHHhcCC---------HHHHHHHhhCC--CCC-chhhHHHHHHH---H------HhcCChHHHHHHHh
Q 039362           95 ESDLFISNSLIHMYGSCGD---------IVYAREVFDGM--PTK-MSVSWNSMLDG---Y------AKCGEMNMARQVFE  153 (440)
Q Consensus        95 ~~~~~~~~~l~~~~~~~g~---------~~~a~~~~~~~--~~~-~~~~~~~l~~~---~------~~~~~~~~a~~~~~  153 (440)
                        +...|...++.-.+.+.         +-+|.++.-..  .+| ....|+..+.-   .      ..+.++|...+.+.
T Consensus       108 --~ldLW~lYl~YIRr~n~~~tGq~r~~i~~ayefv~~~~~~e~~s~~~W~ey~~fle~~~~~~kwEeQqrid~iR~~Y~  185 (660)
T COG5107         108 --NLDLWMLYLEYIRRVNNLITGQKRFKIYEAYEFVLGCAIFEPQSENYWDEYGLFLEYIEELGKWEEQQRIDKIRNGYM  185 (660)
T ss_pred             --cHhHHHHHHHHHHhhCcccccchhhhhHHHHHHHHhcccccccccchHHHHHHHHHhccccccHHHHHHHHHHHHHHH
Confidence              46666666654444331         22232222111  122 23334443332   2      33445566677777


Q ss_pred             hCCC-C---------chhhHHHHHHHHHh-------cCCHHHHHHHHHHHHh--cCCC----CCHHHHHHH---------
Q 039362          154 LMPE-R---------NVVSWSALIDGYVK-------CGDYKEALVIFEEMRD--VGSK----ANEVTLVSV---------  201 (440)
Q Consensus       154 ~~~~-~---------~~~~~~~l~~~~~~-------~~~~~~a~~~~~~~~~--~~~~----~~~~~~~~l---------  201 (440)
                      ++.. |         |-..|..=+.....       .--+-.|.+.++++..  .|..    .+..+++.+         
T Consensus       186 ral~tP~~nleklW~dy~~fE~e~N~~TarKfvge~sp~ym~ar~~yqe~~nlt~Gl~v~~~~~~Rt~nK~~r~s~S~Wl  265 (660)
T COG5107         186 RALQTPMGNLEKLWKDYENFELELNKITARKFVGETSPIYMSARQRYQEIQNLTRGLSVKNPINLRTANKAARTSDSNWL  265 (660)
T ss_pred             HHHcCccccHHHHHHHHHHHHHHHHHHHHHHHhcccCHHHHHHHHHHHHHHHHhccccccCchhhhhhccccccccchhh
Confidence            7654 1         11222111111100       0113345555555422  2221    122222221         


Q ss_pred             --HHHHHhc-----CC--hHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCCchhhHHHHHHH
Q 039362          202 --LCACAHL-----GA--LDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQSDVLIWNAMIGG  272 (440)
Q Consensus       202 --~~~~~~~-----~~--~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~  272 (440)
                        |.-=...     |+  .....-++++.... ++....+|--.-..+...++-+.|+..........|....+  +...
T Consensus       266 NwIkwE~en~l~L~~~~~~qRi~y~~~q~~~y-~~~~~evw~dys~Y~~~isd~q~al~tv~rg~~~spsL~~~--lse~  342 (660)
T COG5107         266 NWIKWEMENGLKLGGRPHEQRIHYIHNQILDY-FYYAEEVWFDYSEYLIGISDKQKALKTVERGIEMSPSLTMF--LSEY  342 (660)
T ss_pred             hHhhHhhcCCcccCCCcHHHHHHHHHHHHHHH-hhhhHHHHHHHHHHHhhccHHHHHHHHHHhcccCCCchhee--HHHH
Confidence              1110000     01  01111222222222 13333444444444455666677776666554444431111  1111


Q ss_pred             HHhcCChHHHHHHHHHHH-----------------------------HcCCCccHhhHHHHHHHHHcCCChHHHHHHHHH
Q 039362          273 LAMHGFVKESLELFTEMQ-----------------------------IVGITPDEITFLGLLSACAHGGLVMEAWYFFKS  323 (440)
Q Consensus       273 ~~~~~~~~~a~~~~~~m~-----------------------------~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~  323 (440)
                      |.-.++.+.....|+...                             -....--...|...+....+..-.+.|..+|-+
T Consensus       343 yel~nd~e~v~~~fdk~~q~L~r~ys~~~s~~~s~~D~N~e~~~Ell~kr~~k~t~v~C~~~N~v~r~~Gl~aaR~~F~k  422 (660)
T COG5107         343 YELVNDEEAVYGCFDKCTQDLKRKYSMGESESASKVDNNFEYSKELLLKRINKLTFVFCVHLNYVLRKRGLEAARKLFIK  422 (660)
T ss_pred             HhhcccHHHHhhhHHHHHHHHHHHHhhhhhhhhccccCCccccHHHHHHHHhhhhhHHHHHHHHHHHHhhHHHHHHHHHH
Confidence            111122222222111110                             000011123455566666677778888888888


Q ss_pred             HhhcC-CCCCcchHHHHHHHHHhcCCHHHHHHHHhcC-CCCccHhHH-HHHHHHHHhcCChhHHHHHHHHHHhcCCCC--
Q 039362          324 LGKRG-MVPKSEHYACMVDALSRAGQVTEAYEFICQM-PLEPTASML-GSLLTGCMNHGKLDLAEIVGKKLVELQPDH--  398 (440)
Q Consensus       324 ~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p~~~~~-~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~--  398 (440)
                      +.+.+ +.+++.++++++..+ ..|+...|..+|+-- ..-||...| ...+..+...++-+.|..+|+..+..-..+  
T Consensus       423 ~rk~~~~~h~vyi~~A~~E~~-~~~d~~ta~~ifelGl~~f~d~~~y~~kyl~fLi~inde~naraLFetsv~r~~~~q~  501 (660)
T COG5107         423 LRKEGIVGHHVYIYCAFIEYY-ATGDRATAYNIFELGLLKFPDSTLYKEKYLLFLIRINDEENARALFETSVERLEKTQL  501 (660)
T ss_pred             HhccCCCCcceeeeHHHHHHH-hcCCcchHHHHHHHHHHhCCCchHHHHHHHHHHHHhCcHHHHHHHHHHhHHHHHHhhh
Confidence            88877 566777788777755 457777888888764 344555444 455666677888888888888666543222  


Q ss_pred             CchHHHHHHHHHhccChHHHHHHHHHHHhc
Q 039362          399 DGRYVGLSNVYAIFKRWDEARTTREAMETR  428 (440)
Q Consensus       399 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  428 (440)
                      ..+|..++.--..-|+...+..+-+++...
T Consensus       502 k~iy~kmi~YEs~~G~lN~v~sLe~rf~e~  531 (660)
T COG5107         502 KRIYDKMIEYESMVGSLNNVYSLEERFREL  531 (660)
T ss_pred             hHHHHHHHHHHHhhcchHHHHhHHHHHHHH
Confidence            346777777777778887777766666543

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.22  E-value=2.9e-06  Score=46.30  Aligned_cols=33  Identities=52%  Similarity=0.803  Sum_probs=24.9

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcc
Q 039362          265 IWNAMIGGLAMHGFVKESLELFTEMQIVGITPD  297 (440)
Q Consensus       265 ~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~  297 (440)
                      +|+.++.+|++.|++++|.++|++|.+.|+.||
T Consensus         2 ~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~   34 (35)
T TIGR00756         2 TYNTLIDGLCKAGRVEEALELFKEMLERGIEPD   34 (35)
T ss_pred             cHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCC
Confidence            577777777777777777777777777777776

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.

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=98.19  E-value=0.00011  Score=54.73  Aligned_cols=100  Identities=7%  Similarity=0.011  Sum_probs=70.7

Q ss_pred             CCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHH
Q 039362          157 ERNVVSWSALIDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSL  236 (440)
Q Consensus       157 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  236 (440)
                      ..+......+...+...|++++|.++|+.+.... +-+..-|..|..++-..|++++|+..|......+ +.++..+..+
T Consensus        32 ~~~l~~lY~~A~~ly~~G~l~~A~~~f~~L~~~D-p~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~-~ddp~~~~~a  109 (157)
T PRK15363         32 TQPLNTLYRYAMQLMEVKEFAGAARLFQLLTIYD-AWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIK-IDAPQAPWAA  109 (157)
T ss_pred             HHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCchHHHHH
Confidence            3344455556666777788888888887776653 3345556666677777788888888888877776 5677777777


Q ss_pred             HHHHHhcCCHHHHHHHHhhhhh
Q 039362          237 IDMYAKCGAIKEALIVFHGVEK  258 (440)
Q Consensus       237 ~~~~~~~g~~~~A~~~~~~~~~  258 (440)
                      ..++...|+.+.|++.|+.+..
T Consensus       110 g~c~L~lG~~~~A~~aF~~Ai~  131 (157)
T PRK15363        110 AECYLACDNVCYAIKALKAVVR  131 (157)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHH
Confidence            7788888888888777777664

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=98.18  E-value=8.2e-06  Score=71.91  Aligned_cols=105  Identities=18%  Similarity=0.059  Sum_probs=86.3

Q ss_pred             HHHHHHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcC-CCCc-cHhHHHHHHHHHHhcCCh
Q 039362          304 LLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQM-PLEP-TASMLGSLLTGCMNHGKL  381 (440)
Q Consensus       304 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~  381 (440)
                      -...+...|+++.|+..|+++++... .+...|..+..+|...|++++|+..++++ .+.| +...|..+..+|...|++
T Consensus         8 ~a~~a~~~~~~~~Ai~~~~~Al~~~P-~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~P~~~~a~~~lg~~~~~lg~~   86 (356)
T PLN03088          8 KAKEAFVDDDFALAVDLYTQAIDLDP-NNAELYADRAQANIKLGNFTEAVADANKAIELDPSLAKAYLRKGTACMKLEEY   86 (356)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCCH
Confidence            34556678999999999999998642 25667888889999999999999999998 5666 456788888999999999


Q ss_pred             hHHHHHHHHHHhcCCCCCchHHHHHHHH
Q 039362          382 DLAEIVGKKLVELQPDHDGRYVGLSNVY  409 (440)
Q Consensus       382 ~~a~~~~~~~~~~~~~~~~~~~~l~~~~  409 (440)
                      ++|+..|+++++++|.++.....+..+.
T Consensus        87 ~eA~~~~~~al~l~P~~~~~~~~l~~~~  114 (356)
T PLN03088         87 QTAKAALEKGASLAPGDSRFTKLIKECD  114 (356)
T ss_pred             HHHHHHHHHHHHhCCCCHHHHHHHHHHH
Confidence            9999999999999999987666655443

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.18  E-value=2e-05  Score=64.40  Aligned_cols=100  Identities=20%  Similarity=0.149  Sum_probs=56.5

Q ss_pred             HcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcC-CCCccH-hHHHHHHHHHHhcCChhHHHH
Q 039362          309 AHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQM-PLEPTA-SMLGSLLTGCMNHGKLDLAEI  386 (440)
Q Consensus       309 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p~~-~~~~~l~~~~~~~g~~~~a~~  386 (440)
                      .+.+++++|+..|.++++.. +-|...|..-..+|.+.|.++.|++-.+.. .+.|.. ..|..|..+|...|++++|++
T Consensus        92 m~~~~Y~eAv~kY~~AI~l~-P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iDp~yskay~RLG~A~~~~gk~~~A~~  170 (304)
T KOG0553|consen   92 MKNKDYQEAVDKYTEAIELD-PTNAVYYCNRAAAYSKLGEYEDAVKDCESALSIDPHYSKAYGRLGLAYLALGKYEEAIE  170 (304)
T ss_pred             HHhhhHHHHHHHHHHHHhcC-CCcchHHHHHHHHHHHhcchHHHHHHHHHHHhcChHHHHHHHHHHHHHHccCcHHHHHH
Confidence            34556666666666666532 114444555556666666666666665555 455533 556666666666666666666


Q ss_pred             HHHHHHhcCCCCCchHHHHHHHH
Q 039362          387 VGKKLVELQPDHDGRYVGLSNVY  409 (440)
Q Consensus       387 ~~~~~~~~~~~~~~~~~~l~~~~  409 (440)
                      .|+++++++|.+......|-.+-
T Consensus       171 aykKaLeldP~Ne~~K~nL~~Ae  193 (304)
T KOG0553|consen  171 AYKKALELDPDNESYKSNLKIAE  193 (304)
T ss_pred             HHHhhhccCCCcHHHHHHHHHHH
Confidence            66666666666654444444333

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.16  E-value=4.9e-06  Score=45.03  Aligned_cols=33  Identities=33%  Similarity=0.534  Sum_probs=22.9

Q ss_pred             hhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCc
Q 039362          264 LIWNAMIGGLAMHGFVKESLELFTEMQIVGITP  296 (440)
Q Consensus       264 ~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p  296 (440)
                      .+|+.++.+|++.|+++.|.++|++|.+.|++|
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            466777777777777777777777777766665

>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=98.15  E-value=5.9e-05  Score=52.42  Aligned_cols=92  Identities=23%  Similarity=0.226  Sum_probs=46.0

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhc
Q 039362          164 SALIDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKC  243 (440)
Q Consensus       164 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  243 (440)
                      ..+...+...|++++|...+++..+.. +.+...+..+..++...+++++|.+.++...+.. +.+...+..+...+...
T Consensus         4 ~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~~   81 (100)
T cd00189           4 LNLGNLYYKLGDYDEALEYYEKALELD-PDNADAYYNLAAAYYKLGKYEEALEDYEKALELD-PDNAKAYYNLGLAYYKL   81 (100)
T ss_pred             HHHHHHHHHHhcHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC-CcchhHHHHHHHHHHHH
Confidence            344455555566666666665554432 2222344444555555555555555555555443 33334444455555555


Q ss_pred             CCHHHHHHHHhhhh
Q 039362          244 GAIKEALIVFHGVE  257 (440)
Q Consensus       244 g~~~~A~~~~~~~~  257 (440)
                      |++++|...+....
T Consensus        82 ~~~~~a~~~~~~~~   95 (100)
T cd00189          82 GKYEEALEAYEKAL   95 (100)
T ss_pred             HhHHHHHHHHHHHH
Confidence            55555555554443

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=98.07  E-value=4.9e-05  Score=59.66  Aligned_cols=94  Identities=18%  Similarity=0.127  Sum_probs=53.4

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHhcC-CCCcc----HhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCCchHHHHHHHHH
Q 039362          336 YACMVDALSRAGQVTEAYEFICQM-PLEPT----ASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYA  410 (440)
Q Consensus       336 ~~~l~~~~~~~~~~~~a~~~~~~~-~~~p~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~  410 (440)
                      +..+...+...|++++|...+++. ...|+    ...+..+...+...|++++|...++++++..|.+...+..++.++.
T Consensus        38 ~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~  117 (172)
T PRK02603         38 YYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELNPKQPSALNNIAVIYH  117 (172)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHH
Confidence            344444455555555555555544 22221    2345556666666666666666666666666666666666666666


Q ss_pred             hccC--------------hHHHHHHHHHHHhcC
Q 039362          411 IFKR--------------WDEARTTREAMETRG  429 (440)
Q Consensus       411 ~~g~--------------~~~A~~~~~~~~~~~  429 (440)
                      ..|+              +++|.+++++....+
T Consensus       118 ~~g~~~~a~~~~~~A~~~~~~A~~~~~~a~~~~  150 (172)
T PRK02603        118 KRGEKAEEAGDQDEAEALFDKAAEYWKQAIRLA  150 (172)
T ss_pred             HcCChHhHhhCHHHHHHHHHHHHHHHHHHHhhC
Confidence            6555              455666666655543

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=98.06  E-value=0.0011  Score=56.82  Aligned_cols=128  Identities=13%  Similarity=0.116  Sum_probs=66.8

Q ss_pred             hHHHHHHHHHhc-CCHHHHHHHHhhhhhc----C-C--chhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCC-----ccH
Q 039362          232 LQTSLIDMYAKC-GAIKEALIVFHGVEKH----Q-S--DVLIWNAMIGGLAMHGFVKESLELFTEMQIVGIT-----PDE  298 (440)
Q Consensus       232 ~~~~l~~~~~~~-g~~~~A~~~~~~~~~~----~-~--~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~-----p~~  298 (440)
                      .+..+...|... |++++|++.|++....    . +  -...+..+...+.+.|++++|.++|++.......     .+.
T Consensus       116 ~~~~lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~~~~~a~~~~~~~A~l~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~~  195 (282)
T PF14938_consen  116 CLKELAEIYEEQLGDYEKAIEYYQKAAELYEQEGSPHSAAECLLKAADLYARLGRYEEAIEIYEEVAKKCLENNLLKYSA  195 (282)
T ss_dssp             HHHHHHHHHCCTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHTCCCHCTTGHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhhcccccchhH
Confidence            344455556666 6777777777766543    1 1  1234555666777777788888777776553221     122


Q ss_pred             h-hHHHHHHHHHcCCChHHHHHHHHHHhhc--CCCCC--cchHHHHHHHHHh--cCCHHHHHHHHhcC
Q 039362          299 I-TFLGLLSACAHGGLVMEAWYFFKSLGKR--GMVPK--SEHYACMVDALSR--AGQVTEAYEFICQM  359 (440)
Q Consensus       299 ~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~--~~~~~~l~~~~~~--~~~~~~a~~~~~~~  359 (440)
                      . .|...+-++...|+...|...+++....  ++..+  ......|+.++-.  ...++++..-|+.+
T Consensus       196 ~~~~l~a~l~~L~~~D~v~A~~~~~~~~~~~~~F~~s~E~~~~~~l~~A~~~~D~e~f~~av~~~d~~  263 (282)
T PF14938_consen  196 KEYFLKAILCHLAMGDYVAARKALERYCSQDPSFASSREYKFLEDLLEAYEEGDVEAFTEAVAEYDSI  263 (282)
T ss_dssp             HHHHHHHHHHHHHTT-HHHHHHHHHHHGTTSTTSTTSHHHHHHHHHHHHHHTT-CCCHHHHCHHHTTS
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHHHHHHHHHhCCHHHHHHHHHHHccc
Confidence            1 2222333455567777777777777654  22211  1233445555542  23355566666665

>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=98.04  E-value=6.3e-06  Score=53.25  Aligned_cols=55  Identities=22%  Similarity=0.262  Sum_probs=45.5

Q ss_pred             HhcCChhHHHHHHHHHHhcCCCCCchHHHHHHHHHhccChHHHHHHHHHHHhcCC
Q 039362          376 MNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEARTTREAMETRGV  430 (440)
Q Consensus       376 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  430 (440)
                      .+.|++++|+.+|+++.+.+|.+..++..++.+|.+.|++++|.++++++.....
T Consensus         2 l~~~~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~   56 (68)
T PF14559_consen    2 LKQGDYDEAIELLEKALQRNPDNPEARLLLAQCYLKQGQYDEAEELLERLLKQDP   56 (68)
T ss_dssp             HHTTHHHHHHHHHHHHHHHTTTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHGGGT
T ss_pred             hhccCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCc
Confidence            4678888999999999888888888888889999999999999888887776543

...

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

Probab=98.04  E-value=0.0001  Score=50.88  Aligned_cols=81  Identities=15%  Similarity=0.076  Sum_probs=70.1

Q ss_pred             HHHHHHHHHHccCChhhHHHHHHHHHHcCC-CCCcchHHHHHHHhhchh--------cHHHHHHHHHHHHHcCCCCcHHH
Q 039362           30 YWNTVIRGYSKSKNPNKSISLFVKMLRAGV-SPDHLTYPFLAKASGRLA--------KRELAVAVHAQIAKTGYESDLFI  100 (440)
Q Consensus        30 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~--------~~~~a~~~~~~~~~~~~~~~~~~  100 (440)
                      +....|..+...+++.....+|+.+++.|+ .|+..+|+.++...++..        ..-..+.+|++|+..+++|+..+
T Consensus        27 t~i~~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~et  106 (120)
T PF08579_consen   27 TQIDNINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDET  106 (120)
T ss_pred             HHHHHHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHH
Confidence            555677788888999999999999999999 899999999998876542        34568899999999999999999


Q ss_pred             HHHHHHHHHh
Q 039362          101 SNSLIHMYGS  110 (440)
Q Consensus       101 ~~~l~~~~~~  110 (440)
                      |+.++..+.+
T Consensus       107 Ynivl~~Llk  116 (120)
T PF08579_consen  107 YNIVLGSLLK  116 (120)
T ss_pred             HHHHHHHHHH
Confidence            9999987754

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 [, , ].

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=98.03  E-value=0.0022  Score=53.23  Aligned_cols=175  Identities=11%  Similarity=0.027  Sum_probs=101.1

Q ss_pred             HHHHHHhcCCHHHHHHHHhhhhhcCCchhhH----HHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHc-
Q 039362          236 LIDMYAKCGAIKEALIVFHGVEKHQSDVLIW----NAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAH-  310 (440)
Q Consensus       236 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~----~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~-  310 (440)
                      ....+...|++++|...|+.+....|+....    -.++.++.+.+++++|...+++..+....-....+...+.+.+. 
T Consensus        38 ~A~~~~~~g~y~~Ai~~f~~l~~~yP~s~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~P~~~~~~~a~Y~~g~~~~  117 (243)
T PRK10866         38 TAQQKLQDGNWKQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVLYMRGLTNM  117 (243)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCcCCCchHHHHHHHHHhhh
Confidence            4444555677777777777776665543221    23455667777777777777777665311111223333333221 


Q ss_pred             -C---------------CC---hHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcCCCCccHhHHHHH
Q 039362          311 -G---------------GL---VMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQMPLEPTASMLGSL  371 (440)
Q Consensus       311 -~---------------~~---~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~p~~~~~~~l  371 (440)
                       .               .+   ..+|...|+.+++.  -|+.             .-..+|...+..+....- ..-..+
T Consensus       118 ~~~~~~~~~~~~~~~~~rD~~~~~~A~~~~~~li~~--yP~S-------------~ya~~A~~rl~~l~~~la-~~e~~i  181 (243)
T PRK10866        118 ALDDSALQGFFGVDRSDRDPQHARAAFRDFSKLVRG--YPNS-------------QYTTDATKRLVFLKDRLA-KYELSV  181 (243)
T ss_pred             hcchhhhhhccCCCccccCHHHHHHHHHHHHHHHHH--CcCC-------------hhHHHHHHHHHHHHHHHH-HHHHHH
Confidence             1               11   23344555555553  1322             223333333333310100 111245


Q ss_pred             HHHHHhcCChhHHHHHHHHHHhcCCCCCc---hHHHHHHHHHhccChHHHHHHHHHHH
Q 039362          372 LTGCMNHGKLDLAEIVGKKLVELQPDHDG---RYVGLSNVYAIFKRWDEARTTREAME  426 (440)
Q Consensus       372 ~~~~~~~g~~~~a~~~~~~~~~~~~~~~~---~~~~l~~~~~~~g~~~~A~~~~~~~~  426 (440)
                      ...|.+.|.+..|+.-++.+++..|..+.   ++..+..+|...|..++|.+....+.
T Consensus       182 a~~Y~~~~~y~AA~~r~~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a~~~~~~l~  239 (243)
T PRK10866        182 AEYYTKRGAYVAVVNRVEQMLRDYPDTQATRDALPLMENAYRQLQLNAQADKVAKIIA  239 (243)
T ss_pred             HHHHHHcCchHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHcCChHHHHHHHHHHh
Confidence            66688899999999999999998877664   57788889999999999998876654

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=98.01  E-value=2.5e-05  Score=51.23  Aligned_cols=58  Identities=17%  Similarity=0.156  Sum_probs=51.4

Q ss_pred             HHHHhcCChhHHHHHHHHHHhcCCCCCchHHHHHHHHHhccChHHHHHHHHHHHhcCC
Q 039362          373 TGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEARTTREAMETRGV  430 (440)
Q Consensus       373 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  430 (440)
                      ..+.+.+++++|.+++++++..+|.++..+...+.++...|++++|.+.+++..+.+.
T Consensus         3 ~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~~p   60 (73)
T PF13371_consen    3 QIYLQQEDYEEALEVLERALELDPDDPELWLQRARCLFQLGRYEEALEDLERALELSP   60 (73)
T ss_pred             HHHHhCCCHHHHHHHHHHHHHhCcccchhhHHHHHHHHHhccHHHHHHHHHHHHHHCC
Confidence            4677889999999999999999999999999999999999999999999999887654

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=98.01  E-value=0.00025  Score=62.68  Aligned_cols=98  Identities=10%  Similarity=-0.018  Sum_probs=68.7

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCH
Q 039362          167 IDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAI  246 (440)
Q Consensus       167 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  246 (440)
                      ...+...|++++|++.|++.+... +-+...+..+..++...|++++|...++.+++.. +.+...+..+..+|...|++
T Consensus         9 a~~a~~~~~~~~Ai~~~~~Al~~~-P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~-P~~~~a~~~lg~~~~~lg~~   86 (356)
T PLN03088          9 AKEAFVDDDFALAVDLYTQAIDLD-PNNAELYADRAQANIKLGNFTEAVADANKAIELD-PSLAKAYLRKGTACMKLEEY   86 (356)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHhCCH
Confidence            345566777777777777777654 3455666667777777777777777777777765 55666777777777777888


Q ss_pred             HHHHHHHhhhhhcCCchhhH
Q 039362          247 KEALIVFHGVEKHQSDVLIW  266 (440)
Q Consensus       247 ~~A~~~~~~~~~~~~~~~~~  266 (440)
                      ++|+..|++..+..|+....
T Consensus        87 ~eA~~~~~~al~l~P~~~~~  106 (356)
T PLN03088         87 QTAKAALEKGASLAPGDSRF  106 (356)
T ss_pred             HHHHHHHHHHHHhCCCCHHH
Confidence            88877777777666654433

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=98.01  E-value=0.00017  Score=66.61  Aligned_cols=63  Identities=21%  Similarity=0.098  Sum_probs=34.4

Q ss_pred             hHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCCchHHHHHHHHHhccChHHHHHHHHHHHhcC
Q 039362          366 SMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEARTTREAMETRG  429 (440)
Q Consensus       366 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  429 (440)
                      ..+..+.......|++++|...++++++++| +...|..++.++...|+.++|.+.+++..+.+
T Consensus       421 ~~~~ala~~~~~~g~~~~A~~~l~rAl~L~p-s~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L~  483 (517)
T PRK10153        421 RIYEILAVQALVKGKTDEAYQAINKAIDLEM-SWLNYVLLGKVYELKGDNRLAADAYSTAFNLR  483 (517)
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHcCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence            3444444444445556666666666666555 23455555555666666666666665555544

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=98.00  E-value=0.003  Score=52.41  Aligned_cols=59  Identities=15%  Similarity=-0.050  Sum_probs=33.5

Q ss_pred             HHHHHHccCChhhHHHHHHHHHHcCCCCCcch----HHHHHHHhhchhcHHHHHHHHHHHHHcCC
Q 039362           34 VIRGYSKSKNPNKSISLFVKMLRAGVSPDHLT----YPFLAKASGRLAKRELAVAVHAQIAKTGY   94 (440)
Q Consensus        34 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~----~~~l~~~~~~~~~~~~a~~~~~~~~~~~~   94 (440)
                      ....+.+.|++++|++.|+.+...  .|+...    .-.++.++.+.+++++|...+++..+..+
T Consensus        38 ~A~~~~~~g~y~~Ai~~f~~l~~~--yP~s~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~P  100 (243)
T PRK10866         38 TAQQKLQDGNWKQAITQLEALDNR--YPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNP  100 (243)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCc
Confidence            344455566677777777666653  233221    12344556666666667666666666543

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.99  E-value=6.3e-05  Score=58.83  Aligned_cols=93  Identities=13%  Similarity=-0.040  Sum_probs=70.1

Q ss_pred             cchHHHHHHHHHhcCCHHHHHHHHhcC-CCCcc----HhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCCchHHHHHH
Q 039362          333 SEHYACMVDALSRAGQVTEAYEFICQM-PLEPT----ASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSN  407 (440)
Q Consensus       333 ~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~  407 (440)
                      ...+..++..+...|++++|...+++. .+.|+    ..++..+...+...|++++|+..++++.+..|.....+..++.
T Consensus        35 a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~~~~~~~~~~~la~  114 (168)
T CHL00033         35 AFTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALERNPFLPQALNNMAV  114 (168)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCcHHHHHHHHH
Confidence            445566677777788888888888877 33332    2467888888899999999999999999998888888888888


Q ss_pred             HHH-------hccChHHHHHHHHHH
Q 039362          408 VYA-------IFKRWDEARTTREAM  425 (440)
Q Consensus       408 ~~~-------~~g~~~~A~~~~~~~  425 (440)
                      ++.       ..|++++|...+++.
T Consensus       115 i~~~~~~~~~~~g~~~~A~~~~~~a  139 (168)
T CHL00033        115 ICHYRGEQAIEQGDSEIAEAWFDQA  139 (168)
T ss_pred             HHHHhhHHHHHcccHHHHHHHHHHH
Confidence            887       777877555555443

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.98  E-value=0.014  Score=54.24  Aligned_cols=114  Identities=13%  Similarity=0.089  Sum_probs=87.1

Q ss_pred             CccHhhHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcCCCCccHhHHHHHHHH
Q 039362          295 TPDEITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQMPLEPTASMLGSLLTG  374 (440)
Q Consensus       295 ~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~p~~~~~~~l~~~  374 (440)
                      .-...+.+--+.-+...|+..+|.++-++.+    -||...|..-+.++...+++++-+++-+..+   .+.-|.....+
T Consensus       681 ~f~dlSl~dTv~~li~~g~~k~a~ql~~~Fk----ipdKr~~wLk~~aLa~~~kweeLekfAkskk---sPIGy~PFVe~  753 (829)
T KOG2280|consen  681 SFVDLSLHDTVTTLILIGQNKRAEQLKSDFK----IPDKRLWWLKLTALADIKKWEELEKFAKSKK---SPIGYLPFVEA  753 (829)
T ss_pred             ccccCcHHHHHHHHHHccchHHHHHHHHhcC----CcchhhHHHHHHHHHhhhhHHHHHHHHhccC---CCCCchhHHHH
Confidence            3444456666666777889999988877664    3788888888999999999999988888774   24556778889


Q ss_pred             HHhcCChhHHHHHHHHHHhcCCCCCchHHHHHHHHHhccChHHHHHHHH
Q 039362          375 CMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEARTTRE  423 (440)
Q Consensus       375 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  423 (440)
                      |.+.|+.++|.+++-+.-..        .-...+|.+.|++.+|.++--
T Consensus       754 c~~~~n~~EA~KYiprv~~l--------~ekv~ay~~~~~~~eAad~A~  794 (829)
T KOG2280|consen  754 CLKQGNKDEAKKYIPRVGGL--------QEKVKAYLRVGDVKEAADLAA  794 (829)
T ss_pred             HHhcccHHHHhhhhhccCCh--------HHHHHHHHHhccHHHHHHHHH
Confidence            99999999999888765221        157788889999998887643

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=97.98  E-value=0.0021  Score=54.96  Aligned_cols=201  Identities=15%  Similarity=0.247  Sum_probs=96.1

Q ss_pred             HHHHHHHHHHccCChhhHHHHHHHHHHcCCCCCc-----chHHHHHHHhhchhcHHHHHHHHHHHHHcCCCCcHHHHHHH
Q 039362           30 YWNTVIRGYSKSKNPNKSISLFVKMLRAGVSPDH-----LTYPFLAKASGRLAKRELAVAVHAQIAKTGYESDLFISNSL  104 (440)
Q Consensus        30 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  104 (440)
                      .|......|-..|++++|.+.|.+........+.     ..|......+ +..++++|.+               .|...
T Consensus        37 ~y~~Aa~~fk~~~~~~~A~~ay~kAa~~~~~~~~~~~Aa~~~~~Aa~~~-k~~~~~~Ai~---------------~~~~A  100 (282)
T PF14938_consen   37 LYEKAANCFKLAKDWEKAAEAYEKAADCYEKLGDKFEAAKAYEEAANCY-KKGDPDEAIE---------------CYEKA  100 (282)
T ss_dssp             HHHHHHHHHHHTT-CHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHH-HHTTHHHHHH---------------HHHHH
T ss_pred             HHHHHHHHHHHHhccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHH-HhhCHHHHHH---------------HHHHH
Confidence            4666666777777777777777765432110000     0111111111 1113333332               33444


Q ss_pred             HHHHHhcCCHHHHHHHhhCCCCCchhhHHHHHHHHHhc-CChHHHHHHHhhCCC-----C----chhhHHHHHHHHHhcC
Q 039362          105 IHMYGSCGDIVYAREVFDGMPTKMSVSWNSMLDGYAKC-GEMNMARQVFELMPE-----R----NVVSWSALIDGYVKCG  174 (440)
Q Consensus       105 ~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~-~~~~~a~~~~~~~~~-----~----~~~~~~~l~~~~~~~~  174 (440)
                      +..|...|++..|-+.+           ..+...|... |++++|.+.|++..+     .    -..++..++..+.+.|
T Consensus       101 ~~~y~~~G~~~~aA~~~-----------~~lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~~~~~a~~~~~~~A~l~~~l~  169 (282)
T PF14938_consen  101 IEIYREAGRFSQAAKCL-----------KELAEIYEEQLGDYEKAIEYYQKAAELYEQEGSPHSAAECLLKAADLYARLG  169 (282)
T ss_dssp             HHHHHHCT-HHHHHHHH-----------HHHHHHHCCTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHhcCcHHHHHHHH-----------HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChhhHHHHHHHHHHHHHHhC
Confidence            45555666665554433           3344455555 666666666665542     1    1234556667777777


Q ss_pred             CHHHHHHHHHHHHhcCCCC-----CHH-HHHHHHHHHHhcCChHHHHHHHHHHHHcC--CCCc--hhhHHHHHHHHHh--
Q 039362          175 DYKEALVIFEEMRDVGSKA-----NEV-TLVSVLCACAHLGALDQGRMMLRYMIDKG--LSLT--LPLQTSLIDMYAK--  242 (440)
Q Consensus       175 ~~~~a~~~~~~~~~~~~~~-----~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~~~--~~~~~~l~~~~~~--  242 (440)
                      ++++|.++|++........     +.. .+...+-++...||+..|...++......  +..+  ......|+.++-.  
T Consensus       170 ~y~~A~~~~e~~~~~~l~~~l~~~~~~~~~l~a~l~~L~~~D~v~A~~~~~~~~~~~~~F~~s~E~~~~~~l~~A~~~~D  249 (282)
T PF14938_consen  170 RYEEAIEIYEEVAKKCLENNLLKYSAKEYFLKAILCHLAMGDYVAARKALERYCSQDPSFASSREYKFLEDLLEAYEEGD  249 (282)
T ss_dssp             -HHHHHHHHHHHHHTCCCHCTTGHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHGTTSTTSTTSHHHHHHHHHHHHHHTT-
T ss_pred             CHHHHHHHHHHHHHHhhcccccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHHHHHHHHHhCC
Confidence            8888888877765542211     111 22233335556677777777777766442  1111  2233445555443  


Q ss_pred             cCCHHHHHHHHhhhh
Q 039362          243 CGAIKEALIVFHGVE  257 (440)
Q Consensus       243 ~g~~~~A~~~~~~~~  257 (440)
                      ...+..++.-|+.+.
T Consensus       250 ~e~f~~av~~~d~~~  264 (282)
T PF14938_consen  250 VEAFTEAVAEYDSIS  264 (282)
T ss_dssp             CCCHHHHCHHHTTSS
T ss_pred             HHHHHHHHHHHcccC
Confidence            223445555555444

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=97.94  E-value=3.2e-05  Score=49.33  Aligned_cols=61  Identities=25%  Similarity=0.249  Sum_probs=50.5

Q ss_pred             HHHHHHhcCCHHHHHHHHhcC-CCCc-cHhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCC
Q 039362          339 MVDALSRAGQVTEAYEFICQM-PLEP-TASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHD  399 (440)
Q Consensus       339 l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~  399 (440)
                      +...+...|++++|.+.|++. ...| +...+..+..++...|++++|...|+++++..|++|
T Consensus         3 ~a~~~~~~g~~~~A~~~~~~~l~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~P~~p   65 (65)
T PF13432_consen    3 LARALYQQGDYDEAIAAFEQALKQDPDNPEAWYLLGRILYQQGRYDEALAYYERALELDPDNP   65 (65)
T ss_dssp             HHHHHHHCTHHHHHHHHHHHHHCCSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT-H
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCCC
Confidence            456788899999999999988 5556 557888889999999999999999999999998874

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

Probab=97.93  E-value=0.00023  Score=63.07  Aligned_cols=122  Identities=16%  Similarity=0.103  Sum_probs=79.5

Q ss_pred             CCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcC--CCCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhc--CCchhh
Q 039362          190 GSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKG--LSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKH--QSDVLI  265 (440)
Q Consensus       190 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~  265 (440)
                      +.+.+...+..++..+....+.+.+..++-+.....  ...-..+..+++..|.+.|..+.++.++..=...  -||..+
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            345566677777777777777777777777766542  2222334457777777777777777777654433  567777


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcC
Q 039362          266 WNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHG  311 (440)
Q Consensus       266 ~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~  311 (440)
                      ++.+|..+.+.|++..|.++...|...+...+..|+..-+.+|.+-
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            7777777777777777777777776666566666666555555543

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 [].

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

Probab=97.93  E-value=6e-05  Score=50.97  Aligned_cols=15  Identities=20%  Similarity=0.233  Sum_probs=5.5

Q ss_pred             HHHhcCChHHHHHHH
Q 039362          272 GLAMHGFVKESLELF  286 (440)
Q Consensus       272 ~~~~~~~~~~a~~~~  286 (440)
                      ++.+.|++++|+++|
T Consensus        67 ~~~~l~~y~eAi~~l   81 (84)
T PF12895_consen   67 CLLKLGKYEEAIKAL   81 (84)
T ss_dssp             HHHHTT-HHHHHHHH
T ss_pred             HHHHhCCHHHHHHHH
Confidence            333344444444333

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.93  E-value=0.00071  Score=53.08  Aligned_cols=90  Identities=18%  Similarity=0.137  Sum_probs=59.1

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCC--HHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHH
Q 039362          160 VVSWSALIDGYVKCGDYKEALVIFEEMRDVGSKAN--EVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLI  237 (440)
Q Consensus       160 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  237 (440)
                      ...+..+...+...|++++|...|++.......++  ...+..+..++...|++++|...+.+..+.. +.+...+..+.
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            44566667777777888888888887765432222  3456667777777788888888777777654 44455566666


Q ss_pred             HHHHhcCCHHHHH
Q 039362          238 DMYAKCGAIKEAL  250 (440)
Q Consensus       238 ~~~~~~g~~~~A~  250 (440)
                      .+|...|+...+.
T Consensus       114 ~~~~~~g~~~~a~  126 (172)
T PRK02603        114 VIYHKRGEKAEEA  126 (172)
T ss_pred             HHHHHcCChHhHh
Confidence            6776666654443

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=97.93  E-value=0.0015  Score=49.66  Aligned_cols=126  Identities=15%  Similarity=0.058  Sum_probs=61.2

Q ss_pred             CccHhhHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcC-CCCc---cHhHHHH
Q 039362          295 TPDEITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQM-PLEP---TASMLGS  370 (440)
Q Consensus       295 ~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p---~~~~~~~  370 (440)
                      .|+...-..|..+..+.|+..+|...|.+...--+.-|......+.++....+++..|...+++. ...|   ++.+...
T Consensus        86 ApTvqnr~rLa~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r~pd~~Ll  165 (251)
T COG4700          86 APTVQNRYRLANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRSPDGHLL  165 (251)
T ss_pred             chhHHHHHHHHHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCCCCchHH
Confidence            34444444445555555555555555555544323334444555555555555555555555554 1111   1222234


Q ss_pred             HHHHHHhcCChhHHHHHHHHHHhcCCCCCchHHHHHHHHHhccChHHHHHH
Q 039362          371 LLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEARTT  421 (440)
Q Consensus       371 l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  421 (440)
                      +.+.+...|++.+|+..|+.+....|... .-......+.++|+.++|..-
T Consensus       166 ~aR~laa~g~~a~Aesafe~a~~~ypg~~-ar~~Y~e~La~qgr~~ea~aq  215 (251)
T COG4700         166 FARTLAAQGKYADAESAFEVAISYYPGPQ-ARIYYAEMLAKQGRLREANAQ  215 (251)
T ss_pred             HHHHHHhcCCchhHHHHHHHHHHhCCCHH-HHHHHHHHHHHhcchhHHHHH
Confidence            45555556666666666666655544422 333344455555555544433

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

Probab=97.92  E-value=0.00063  Score=57.91  Aligned_cols=142  Identities=12%  Similarity=0.123  Sum_probs=94.6

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHH-HHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHH
Q 039362          161 VSWSALIDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCA-CAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDM  239 (440)
Q Consensus       161 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  239 (440)
                      .+|..++....+.+..+.|..+|.+..+.+ ..+...|...... +...++.+.|..+|+..++. ++.+...+...+..
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            356777777777777888888888887543 3334444444433 33356677788888888776 36777778888888


Q ss_pred             HHhcCCHHHHHHHHhhhhhcCCch----hhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHH
Q 039362          240 YAKCGAIKEALIVFHGVEKHQSDV----LIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLS  306 (440)
Q Consensus       240 ~~~~g~~~~A~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~  306 (440)
                      +...|+.+.|..+|++....-+..    ..|...+..-.+.|+.+.+..+.+++.+.  .|+...+..++.
T Consensus        80 l~~~~d~~~aR~lfer~i~~l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~--~~~~~~~~~f~~  148 (280)
T PF05843_consen   80 LIKLNDINNARALFERAISSLPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEEL--FPEDNSLELFSD  148 (280)
T ss_dssp             HHHTT-HHHHHHHHHHHCCTSSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHH--TTTS-HHHHHHC
T ss_pred             HHHhCcHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--hhhhhHHHHHHH
Confidence            888888888888888887654433    37888888888888888888888887765  444444444443

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=97.91  E-value=1.4e-05  Score=42.09  Aligned_cols=29  Identities=28%  Similarity=0.541  Sum_probs=21.3

Q ss_pred             HHHHHHHHHHccCChhhHHHHHHHHHHcC
Q 039362           30 YWNTVIRGYSKSKNPNKSISLFVKMLRAG   58 (440)
Q Consensus        30 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~   58 (440)
                      +|+.++++|++.|++++|.++|++|.+.|
T Consensus         2 ~y~~li~~~~~~~~~~~a~~~~~~M~~~g   30 (31)
T PF01535_consen    2 TYNSLISGYCKMGQFEEALEVFDEMRERG   30 (31)
T ss_pred             cHHHHHHHHHccchHHHHHHHHHHHhHCc
Confidence            57777777777777777777777777665

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.

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.91  E-value=0.00052  Score=63.42  Aligned_cols=138  Identities=14%  Similarity=0.010  Sum_probs=93.3

Q ss_pred             CchhhHHHHHHHHHh--c---CChHHHHHHHHHHHHcCCCccH-hhHHHHHHHHHcC--------CChHHHHHHHHHHhh
Q 039362          261 SDVLIWNAMIGGLAM--H---GFVKESLELFTEMQIVGITPDE-ITFLGLLSACAHG--------GLVMEAWYFFKSLGK  326 (440)
Q Consensus       261 ~~~~~~~~l~~~~~~--~---~~~~~a~~~~~~m~~~~~~p~~-~~~~~l~~~~~~~--------~~~~~a~~~~~~~~~  326 (440)
                      .+...|...+.+...  .   ++...|..+|++..+.  .|+. ..+..+..++...        .+...+.+...+...
T Consensus       335 ~~~~Ay~~~lrg~~~~~~~~~~~~~~A~~lle~Ai~l--dP~~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~~a~a  412 (517)
T PRK10153        335 HQGAALTLFYQAHHYLNSGDAKSLNKASDLLEEILKS--EPDFTYAQAEKALADIVRHSQQPLDEKQLAALSTELDNIVA  412 (517)
T ss_pred             CCHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHhhh
Confidence            355667766665432  2   2356788888888775  4443 3444433333211        122334444444333


Q ss_pred             c-CCCCCcchHHHHHHHHHhcCCHHHHHHHHhcC-CCCccHhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCCc
Q 039362          327 R-GMVPKSEHYACMVDALSRAGQVTEAYEFICQM-PLEPTASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDG  400 (440)
Q Consensus       327 ~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~  400 (440)
                      . ....+...|..+.-.....|++++|...++++ .+.|+...|..+...+...|+.++|...++++..++|.++.
T Consensus       413 l~~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L~P~~pt  488 (517)
T PRK10153        413 LPELNVLPRIYEILAVQALVKGKTDEAYQAINKAIDLEMSWLNYVLLGKVYELKGDNRLAADAYSTAFNLRPGENT  488 (517)
T ss_pred             cccCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCch
Confidence            2 12234566777766777789999999999998 77788888999999999999999999999999999999884

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=97.90  E-value=0.024  Score=54.03  Aligned_cols=410  Identities=13%  Similarity=0.099  Sum_probs=227.0

Q ss_pred             cccccccCChhhHHHHhhhcC---CCChHHHHHHHHHHHccCChhhHHHHHHHHHHcCCCCCcchHHHHHHHhhchhcHH
Q 039362            4 FSALSYLGNIDYSCKVLSHLS---NPRIFYWNTVIRGYSKSKNPNKSISLFVKMLRAGVSPDHLTYPFLAKASGRLAKRE   80 (440)
Q Consensus         4 ~y~~~~~g~~~~A~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~   80 (440)
                      ++...+.|+.++|..+++...   ..|..+...+-..|.+.|+.++|..+|+.....  -|+......+..+|.+.+++.
T Consensus        50 aLsl~r~gk~~ea~~~Le~~~~~~~~D~~tLq~l~~~y~d~~~~d~~~~~Ye~~~~~--~P~eell~~lFmayvR~~~yk  127 (932)
T KOG2053|consen   50 ALSLFRLGKGDEALKLLEALYGLKGTDDLTLQFLQNVYRDLGKLDEAVHLYERANQK--YPSEELLYHLFMAYVREKSYK  127 (932)
T ss_pred             HHHHHHhcCchhHHHHHhhhccCCCCchHHHHHHHHHHHHHhhhhHHHHHHHHHHhh--CCcHHHHHHHHHHHHHHHHHH
Confidence            344456699999999998764   457789999999999999999999999999885  577777777888899998888


Q ss_pred             HHHHHHHHHHHcCCCCcHHHHHHHHHHHHhcCC----------HHHHHHHhhCCCCCc-h----hhHHHHHHHHHhcCCh
Q 039362           81 LAVAVHAQIAKTGYESDLFISNSLIHMYGSCGD----------IVYAREVFDGMPTKM-S----VSWNSMLDGYAKCGEM  145 (440)
Q Consensus        81 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~----------~~~a~~~~~~~~~~~-~----~~~~~l~~~~~~~~~~  145 (440)
                      +-.++--++.+. .+-++..+=++++...+.-.          ..-|.+.++.+.+.+ .    .-...-...+...|++
T Consensus       128 ~qQkaa~~LyK~-~pk~~yyfWsV~Slilqs~~~~~~~~~~i~l~LA~~m~~~~l~~~gk~~s~aE~~Lyl~iL~~~~k~  206 (932)
T KOG2053|consen  128 KQQKAALQLYKN-FPKRAYYFWSVISLILQSIFSENELLDPILLALAEKMVQKLLEKKGKIESEAEIILYLLILELQGKY  206 (932)
T ss_pred             HHHHHHHHHHHh-CCcccchHHHHHHHHHHhccCCcccccchhHHHHHHHHHHHhccCCccchHHHHHHHHHHHHhcccH
Confidence            766666666554 33355555556665554321          234555555555433 1    1122233445678889


Q ss_pred             HHHHHHHhh-C----CCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHH----HHHHH-H--------HHh
Q 039362          146 NMARQVFEL-M----PERNVVSWSALIDGYVKCGDYKEALVIFEEMRDVGSKANEVTL----VSVLC-A--------CAH  207 (440)
Q Consensus       146 ~~a~~~~~~-~----~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~----~~l~~-~--------~~~  207 (440)
                      ++|.+++.. .    ...+...-+.-+..+...++|.+..++-.++...|.. |-.+|    ..++. .        +..
T Consensus       207 ~eal~~l~~~la~~l~~~~~~l~~~~~dllk~l~~w~~l~~l~~~Ll~k~~D-dy~~~~~sv~klLe~~~~~~a~~~~s~  285 (932)
T KOG2053|consen  207 QEALEFLAITLAEKLTSANLYLENKKLDLLKLLNRWQELFELSSRLLEKGND-DYKIYTDSVFKLLELLNKEPAEAAHSL  285 (932)
T ss_pred             HHHHHHHHHHHHHhccccchHHHHHHHHHHHHhcChHHHHHHHHHHHHhCCc-chHHHHHHHHHHHHhcccccchhhhhh
Confidence            999999832 2    2234444456677888889999999998888887522 21111    11111 1        111


Q ss_pred             cCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHH---hcCCHHHHHHHHhhhhhcCC----chhhH---------HHHHH
Q 039362          208 LGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYA---KCGAIKEALIVFHGVEKHQS----DVLIW---------NAMIG  271 (440)
Q Consensus       208 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~---~~g~~~~A~~~~~~~~~~~~----~~~~~---------~~l~~  271 (440)
                      .+..+...+..++.....   ....|-+-+.++.   .-|+.+++...|-+--...|    |...|         ..++.
T Consensus       286 ~~~l~~~~ek~~~~i~~~---~Rgp~LA~lel~kr~~~~gd~ee~~~~y~~kfg~kpcc~~Dl~~yl~~l~~~q~~~l~~  362 (932)
T KOG2053|consen  286 SKSLDECIEKAQKNIGSK---SRGPYLARLELDKRYKLIGDSEEMLSYYFKKFGDKPCCAIDLNHYLGHLNIDQLKSLMS  362 (932)
T ss_pred             hhhHHHHHHHHHHhhccc---ccCcHHHHHHHHHHhcccCChHHHHHHHHHHhCCCcHhHhhHHHhhccCCHHHHHHHHH
Confidence            223333333333333221   1222333333332   34666665544432211111    11111         11111


Q ss_pred             HHH------------------------hcCC-----hHHHHHHHHHHH---HcC------CCccHhh---------HHHH
Q 039362          272 GLA------------------------MHGF-----VKESLELFTEMQ---IVG------ITPDEIT---------FLGL  304 (440)
Q Consensus       272 ~~~------------------------~~~~-----~~~a~~~~~~m~---~~~------~~p~~~~---------~~~l  304 (440)
                      .+.                        -.|.     .+.....+.+..   +.|      +-|+..+         .+.|
T Consensus       363 ~l~~~~~~~s~~~k~l~~h~c~l~~~rl~G~~~~l~ad~i~a~~~kl~~~ye~gls~~K~ll~TE~~~g~~~llLav~~L  442 (932)
T KOG2053|consen  363 KLVLADDDSSGDEKVLQQHLCVLLLLRLLGLYEKLPADSILAYVRKLKLTYEKGLSLSKDLLPTEYSFGDELLLLAVNHL  442 (932)
T ss_pred             HhhccCCcchhhHHHHHHHHHHHHHHHHhhccccCChHHHHHHHHHHHHHHhccccccccccccccccHHHHHHHHHHHH
Confidence            111                        1121     122233332221   222      2334333         2455


Q ss_pred             HHHHHcCCChH---HHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcCCCCc-cHhHHHHH-HHHHHhcC
Q 039362          305 LSACAHGGLVM---EAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQMPLEP-TASMLGSL-LTGCMNHG  379 (440)
Q Consensus       305 ~~~~~~~~~~~---~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~p-~~~~~~~l-~~~~~~~g  379 (440)
                      ++.|.+.++..   +|+-+++.-.... +.|..+-..+++.|.-.|-+..|.++|+.+.++. -..|...+ ..-+...|
T Consensus       443 id~~rktnd~~~l~eaI~LLE~glt~s-~hnf~~KLlLiriY~~lGa~p~a~~~y~tLdIK~IQ~DTlgh~~~~~~~t~g  521 (932)
T KOG2053|consen  443 IDLWRKTNDLTDLFEAITLLENGLTKS-PHNFQTKLLLIRIYSYLGAFPDAYELYKTLDIKNIQTDTLGHLIFRRAETSG  521 (932)
T ss_pred             HHHHHhcCcHHHHHHHHHHHHHHhhcC-CccHHHHHHHHHHHHHhcCChhHHHHHHhcchHHhhhccchHHHHHHHHhcc
Confidence            66677776655   4444444444321 2244444567888888888888888888884332 12333333 33455678


Q ss_pred             ChhHHHHHHHHHHhcCCCCCchHHHHHHHHHhccChHHHHHH
Q 039362          380 KLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEARTT  421 (440)
Q Consensus       380 ~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  421 (440)
                      ++..+...+........++..--.-++..-.+.|.+.+..+.
T Consensus       522 ~~~~~s~~~~~~lkfy~~~~kE~~eyI~~AYr~g~ySkI~em  563 (932)
T KOG2053|consen  522 RSSFASNTFNEHLKFYDSSLKETPEYIALAYRRGAYSKIPEM  563 (932)
T ss_pred             cchhHHHHHHHHHHHHhhhhhhhHHHHHHHHHcCchhhhHHH
Confidence            888888888887776544333222333333456666655443

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

Probab=97.90  E-value=0.00035  Score=59.48  Aligned_cols=131  Identities=12%  Similarity=0.125  Sum_probs=64.8

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHH-HHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHH
Q 039362          265 IWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSA-CAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDAL  343 (440)
Q Consensus       265 ~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~-~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  343 (440)
                      +|..++...-+.+..+.|..+|.+..+.+ ..+...|...... +...++.+.|..+|+...+. +..+...|...++.+
T Consensus         3 v~i~~m~~~~r~~g~~~aR~vF~~a~~~~-~~~~~vy~~~A~~E~~~~~d~~~A~~Ife~glk~-f~~~~~~~~~Y~~~l   80 (280)
T PF05843_consen    3 VWIQYMRFMRRTEGIEAARKVFKRARKDK-RCTYHVYVAYALMEYYCNKDPKRARKIFERGLKK-FPSDPDFWLEYLDFL   80 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHCCC-CS-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHH-HTT-HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCChHHHHHHHHHHHcCC-CCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHHH
Confidence            34455555555555666666666655332 1122222222222 22234455566666665554 223445555555666


Q ss_pred             HhcCCHHHHHHHHhcC--CCCcc---HhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCC
Q 039362          344 SRAGQVTEAYEFICQM--PLEPT---ASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPD  397 (440)
Q Consensus       344 ~~~~~~~~a~~~~~~~--~~~p~---~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  397 (440)
                      ...|+.+.|..+|++.  .+.++   ...|...+..-.+.|+.+.+..+.+++.+..|.
T Consensus        81 ~~~~d~~~aR~lfer~i~~l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~~~~  139 (280)
T PF05843_consen   81 IKLNDINNARALFERAISSLPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEELFPE  139 (280)
T ss_dssp             HHTT-HHHHHHHHHHHCCTSSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHHTTT
T ss_pred             HHhCcHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhh
Confidence            6666666666666655  22221   135666666666666666666666666665554

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.

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.85  E-value=0.0015  Score=47.07  Aligned_cols=57  Identities=16%  Similarity=0.237  Sum_probs=27.2

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhcCCCCC--HHHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 039362          167 IDGYVKCGDYKEALVIFEEMRDVGSKAN--EVTLVSVLCACAHLGALDQGRMMLRYMID  223 (440)
Q Consensus       167 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  223 (440)
                      ..++-..|+.++|+.+|++....|...+  ...+..+...+...|++++|..+++....
T Consensus         8 A~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~   66 (120)
T PF12688_consen    8 AWAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALE   66 (120)
T ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            3444445555555555555555443332  12333344444555555555555555443

>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=97.85  E-value=0.00011  Score=47.38  Aligned_cols=60  Identities=18%  Similarity=0.210  Sum_probs=36.7

Q ss_pred             hcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCCchhhHH
Q 039362          207 HLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQSDVLIWN  267 (440)
Q Consensus       207 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~  267 (440)
                      ..|++++|...|+.+.+.. |.+..+...++.+|.+.|++++|..+++++....|+...|.
T Consensus         3 ~~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~   62 (68)
T PF14559_consen    3 KQGDYDEAIELLEKALQRN-PDNPEARLLLAQCYLKQGQYDEAEELLERLLKQDPDNPEYQ   62 (68)
T ss_dssp             HTTHHHHHHHHHHHHHHHT-TTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHGGGTTHHHHH
T ss_pred             hccCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCHHHHH
Confidence            4566666666666666654 45566666666666666666666666666666555543333

...

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=97.84  E-value=0.00032  Score=57.55  Aligned_cols=100  Identities=17%  Similarity=0.166  Sum_probs=76.2

Q ss_pred             HHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHH
Q 039362          168 DGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIK  247 (440)
Q Consensus       168 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  247 (440)
                      .-+.+.+++.+|+..|.+.+... +-|.+-|..-..+|++.|.++.|++-.+..+..+ +....+|..|..+|...|+++
T Consensus        89 N~~m~~~~Y~eAv~kY~~AI~l~-P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iD-p~yskay~RLG~A~~~~gk~~  166 (304)
T KOG0553|consen   89 NKLMKNKDYQEAVDKYTEAIELD-PTNAVYYCNRAAAYSKLGEYEDAVKDCESALSID-PHYSKAYGRLGLAYLALGKYE  166 (304)
T ss_pred             HHHHHhhhHHHHHHHHHHHHhcC-CCcchHHHHHHHHHHHhcchHHHHHHHHHHHhcC-hHHHHHHHHHHHHHHccCcHH
Confidence            34566788888888888887763 4566677777788888888888888888777766 566778888888888888888


Q ss_pred             HHHHHHhhhhhcCCchhhHHHH
Q 039362          248 EALIVFHGVEKHQSDVLIWNAM  269 (440)
Q Consensus       248 ~A~~~~~~~~~~~~~~~~~~~l  269 (440)
                      +|++.|++.....|+..+|-.=
T Consensus       167 ~A~~aykKaLeldP~Ne~~K~n  188 (304)
T KOG0553|consen  167 EAIEAYKKALELDPDNESYKSN  188 (304)
T ss_pred             HHHHHHHhhhccCCCcHHHHHH
Confidence            8888888888877766655433

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

Probab=97.82  E-value=3.1e-05  Score=40.70  Aligned_cols=29  Identities=38%  Similarity=0.663  Sum_probs=18.9

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHHcC
Q 039362          265 IWNAMIGGLAMHGFVKESLELFTEMQIVG  293 (440)
Q Consensus       265 ~~~~l~~~~~~~~~~~~a~~~~~~m~~~~  293 (440)
                      +|+.++.+|++.|++++|.++|++|.+.|
T Consensus         2 ~y~~li~~~~~~~~~~~a~~~~~~M~~~g   30 (31)
T PF01535_consen    2 TYNSLISGYCKMGQFEEALEVFDEMRERG   30 (31)
T ss_pred             cHHHHHHHHHccchHHHHHHHHHHHhHCc
Confidence            56666666666666666666666666554

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.

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.81  E-value=0.00057  Score=49.14  Aligned_cols=56  Identities=25%  Similarity=0.071  Sum_probs=27.8

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHhcCCC---CCchHHHHHHHHHhccChHHHHHHHH
Q 039362          368 LGSLLTGCMNHGKLDLAEIVGKKLVELQPD---HDGRYVGLSNVYAIFKRWDEARTTRE  423 (440)
Q Consensus       368 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~---~~~~~~~l~~~~~~~g~~~~A~~~~~  423 (440)
                      +..+..++...|++++|..++++.....|+   +......++.++...|+.++|.+.+-
T Consensus        41 ~i~lastlr~LG~~deA~~~L~~~~~~~p~~~~~~~l~~f~Al~L~~~gr~~eAl~~~l   99 (120)
T PF12688_consen   41 LIQLASTLRNLGRYDEALALLEEALEEFPDDELNAALRVFLALALYNLGRPKEALEWLL   99 (120)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            334444555555555555555555554444   33333344445555555555555443

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=97.81  E-value=0.0054  Score=46.77  Aligned_cols=133  Identities=15%  Similarity=0.039  Sum_probs=83.4

Q ss_pred             CCchhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHhhcCC-CCCcchHHH
Q 039362          260 QSDVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKRGM-VPKSEHYAC  338 (440)
Q Consensus       260 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~  338 (440)
                      .|++..--.+..++...|+..+|...|++...--..-|......+.++....+++..|...++.+.+.+. .-++.....
T Consensus        86 ApTvqnr~rLa~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r~pd~~Ll  165 (251)
T COG4700          86 APTVQNRYRLANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRSPDGHLL  165 (251)
T ss_pred             chhHHHHHHHHHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCCCCchHH
Confidence            4555556666777777777777777777766443445556666677777777777777777777766521 012333445


Q ss_pred             HHHHHHhcCCHHHHHHHHhcC-CCCccHhHHHHHHHHHHhcCChhHHHHHHHHHH
Q 039362          339 MVDALSRAGQVTEAYEFICQM-PLEPTASMLGSLLTGCMNHGKLDLAEIVGKKLV  392 (440)
Q Consensus       339 l~~~~~~~~~~~~a~~~~~~~-~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  392 (440)
                      +.+.|...|++..|..-|+.. ...|+...-......+.++|+.+++..-+..+.
T Consensus       166 ~aR~laa~g~~a~Aesafe~a~~~ypg~~ar~~Y~e~La~qgr~~ea~aq~~~v~  220 (251)
T COG4700         166 FARTLAAQGKYADAESAFEVAISYYPGPQARIYYAEMLAKQGRLREANAQYVAVV  220 (251)
T ss_pred             HHHHHHhcCCchhHHHHHHHHHHhCCCHHHHHHHHHHHHHhcchhHHHHHHHHHH
Confidence            667777777777777777766 555655544444555666776666554444433

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=97.81  E-value=0.00024  Score=59.33  Aligned_cols=59  Identities=15%  Similarity=-0.021  Sum_probs=27.5

Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHhcCCCCCc---hHHHHHHHHHhccChHHHHHHHHHHHh
Q 039362          369 GSLLTGCMNHGKLDLAEIVGKKLVELQPDHDG---RYVGLSNVYAIFKRWDEARTTREAMET  427 (440)
Q Consensus       369 ~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~---~~~~l~~~~~~~g~~~~A~~~~~~~~~  427 (440)
                      .-++..+...|++++|...|+++.+..|.++.   ++..++.++...|++++|.++++++++
T Consensus       184 y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~klg~~~~~~g~~~~A~~~~~~vi~  245 (263)
T PRK10803        184 YWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFKVGVIMQDKGDTAKAKAVYQQVIK  245 (263)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            33444444555555555555555544443322   233334444445555555555554444

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.79  E-value=0.0013  Score=51.33  Aligned_cols=80  Identities=10%  Similarity=0.040  Sum_probs=45.0

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC--CHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHH
Q 039362          161 VSWSALIDGYVKCGDYKEALVIFEEMRDVGSKA--NEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLID  238 (440)
Q Consensus       161 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  238 (440)
                      ..|..+...+...|++++|+..|++.......+  ...++..+..++...|++++|...++...+.. +.....+..+..
T Consensus        36 ~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~~-~~~~~~~~~la~  114 (168)
T CHL00033         36 FTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALERN-PFLPQALNNMAV  114 (168)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCcHHHHHHHHH
Confidence            345556666666677777777777665442222  12355566666666677777777666666543 333334444444


Q ss_pred             HHH
Q 039362          239 MYA  241 (440)
Q Consensus       239 ~~~  241 (440)
                      .+.
T Consensus       115 i~~  117 (168)
T CHL00033        115 ICH  117 (168)
T ss_pred             HHH
Confidence            444

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=97.78  E-value=0.02  Score=49.43  Aligned_cols=106  Identities=15%  Similarity=0.138  Sum_probs=67.3

Q ss_pred             hHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcCCCCccHhHHHHHHHHHHhcC
Q 039362          300 TFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQMPLEPTASMLGSLLTGCMNHG  379 (440)
Q Consensus       300 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~p~~~~~~~l~~~~~~~g  379 (440)
                      +.+.-+.-+...|+...|.++-.+..    .|+...|...+++++..++|++-.++...   +-.+.-|...+.+|.+.|
T Consensus       179 Sl~~Ti~~li~~~~~k~A~kl~k~Fk----v~dkrfw~lki~aLa~~~~w~eL~~fa~s---kKsPIGyepFv~~~~~~~  251 (319)
T PF04840_consen  179 SLNDTIRKLIEMGQEKQAEKLKKEFK----VPDKRFWWLKIKALAENKDWDELEKFAKS---KKSPIGYEPFVEACLKYG  251 (319)
T ss_pred             CHHHHHHHHHHCCCHHHHHHHHHHcC----CcHHHHHHHHHHHHHhcCCHHHHHHHHhC---CCCCCChHHHHHHHHHCC
Confidence            44445555666677766666654442    36677777777777777777777766543   223455667777777777


Q ss_pred             ChhHHHHHHHHHHhcCCCCCchHHHHHHHHHhccChHHHHHH
Q 039362          380 KLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEARTT  421 (440)
Q Consensus       380 ~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  421 (440)
                      +..+|..+..++         .+..-+..|.+.|++.+|.+.
T Consensus       252 ~~~eA~~yI~k~---------~~~~rv~~y~~~~~~~~A~~~  284 (319)
T PF04840_consen  252 NKKEASKYIPKI---------PDEERVEMYLKCGDYKEAAQE  284 (319)
T ss_pred             CHHHHHHHHHhC---------ChHHHHHHHHHCCCHHHHHHH
Confidence            777777777662         224556667777777777554

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

>PRK15331 chaperone protein SicA; Provisional

Probab=97.78  E-value=0.00033  Score=52.53  Aligned_cols=85  Identities=13%  Similarity=0.071  Sum_probs=51.7

Q ss_pred             HHhcCCHHHHHHHHhcC-CCCc-cHhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCCchHHHHHHHHHhccChHHHHH
Q 039362          343 LSRAGQVTEAYEFICQM-PLEP-TASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEART  420 (440)
Q Consensus       343 ~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  420 (440)
                      +...|++++|..+|+-+ -..| +..-|..|..++...+++++|+..|..+..+++++|......+.+|...|+.+.|+.
T Consensus        47 ~y~~Gk~~eA~~~F~~L~~~d~~n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~~~dp~p~f~agqC~l~l~~~~~A~~  126 (165)
T PRK15331         47 FYNQGRLDEAETFFRFLCIYDFYNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLKNDYRPVFFTGQCQLLMRKAAKARQ  126 (165)
T ss_pred             HHHCCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccCCCCccchHHHHHHHhCCHHHHHH
Confidence            34556666666666654 1122 334445555556666666666666666666666666666666666666666666666


Q ss_pred             HHHHHHh
Q 039362          421 TREAMET  427 (440)
Q Consensus       421 ~~~~~~~  427 (440)
                      .|+...+
T Consensus       127 ~f~~a~~  133 (165)
T PRK15331        127 CFELVNE  133 (165)
T ss_pred             HHHHHHh
Confidence            6666555

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

Probab=97.77  E-value=0.00086  Score=59.51  Aligned_cols=119  Identities=16%  Similarity=0.082  Sum_probs=91.5

Q ss_pred             CchhhHHHHHHHHHhcCCHHHHHHHHHHHHhc--CCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHH
Q 039362          158 RNVVSWSALIDGYVKCGDYKEALVIFEEMRDV--GSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTS  235 (440)
Q Consensus       158 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  235 (440)
                      -+......+++.+....+.+.+..++.++...  ....-..|..++++.|...|..+.+..+++.=...|+-||..+++.
T Consensus        64 vS~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~s~n~  143 (429)
T PF10037_consen   64 VSSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNFSFNL  143 (429)
T ss_pred             CcHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChhhHHH
Confidence            35556677777777788888899998888765  2222345667899999999999999999999999999999999999


Q ss_pred             HHHHHHhcCCHHHHHHHHhhhhhc--CCchhhHHHHHHHHHhc
Q 039362          236 LIDMYAKCGAIKEALIVFHGVEKH--QSDVLIWNAMIGGLAMH  276 (440)
Q Consensus       236 l~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~~~  276 (440)
                      |+..+.+.|++..|.++...|...  ..+..++...+.+|.+-
T Consensus       144 Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~~~  186 (429)
T PF10037_consen  144 LMDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCYKY  186 (429)
T ss_pred             HHHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHHHh
Confidence            999999999999999999887643  23445554444444443

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 [].

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

Probab=97.73  E-value=0.00095  Score=46.21  Aligned_cols=80  Identities=13%  Similarity=0.076  Sum_probs=64.2

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhcCC-CCCHHHHHHHHHHHHhcC--------ChHHHHHHHHHHHHcCCCCchhhH
Q 039362          163 WSALIDGYVKCGDYKEALVIFEEMRDVGS-KANEVTLVSVLCACAHLG--------ALDQGRMMLRYMIDKGLSLTLPLQ  233 (440)
Q Consensus       163 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~--------~~~~a~~~~~~~~~~~~~~~~~~~  233 (440)
                      -...|..+...+++.....+|+.+++.|+ .|+..+|+.++.+.++..        +.-....+|+.|+..+++|+..+|
T Consensus        28 ~i~~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~etY  107 (120)
T PF08579_consen   28 QIDNINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDETY  107 (120)
T ss_pred             HHHHHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHHH
Confidence            34456666777999999999999999999 899999999998877653        244566788888888888888888


Q ss_pred             HHHHHHHHh
Q 039362          234 TSLIDMYAK  242 (440)
Q Consensus       234 ~~l~~~~~~  242 (440)
                      +.++..+.+
T Consensus       108 nivl~~Llk  116 (120)
T PF08579_consen  108 NIVLGSLLK  116 (120)
T ss_pred             HHHHHHHHH
Confidence            888877654

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 [, , ].

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=97.73  E-value=0.024  Score=48.95  Aligned_cols=103  Identities=19%  Similarity=0.156  Sum_probs=51.5

Q ss_pred             HHHHHhcCCHHHHHHHHhhhhhcCCchhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHH
Q 039362          237 IDMYAKCGAIKEALIVFHGVEKHQSDVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVME  316 (440)
Q Consensus       237 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~  316 (440)
                      +.-+...|+...|.++-.+..  -|+...|-..+.+++..++|++-..+...      +-++.-|..++.+|.+.|+..+
T Consensus       184 i~~li~~~~~k~A~kl~k~Fk--v~dkrfw~lki~aLa~~~~w~eL~~fa~s------kKsPIGyepFv~~~~~~~~~~e  255 (319)
T PF04840_consen  184 IRKLIEMGQEKQAEKLKKEFK--VPDKRFWWLKIKALAENKDWDELEKFAKS------KKSPIGYEPFVEACLKYGNKKE  255 (319)
T ss_pred             HHHHHHCCCHHHHHHHHHHcC--CcHHHHHHHHHHHHHhcCCHHHHHHHHhC------CCCCCChHHHHHHHHHCCCHHH
Confidence            333444555555555555544  45555555555666666665554443221      1123455555555555555555


Q ss_pred             HHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHh
Q 039362          317 AWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFIC  357 (440)
Q Consensus       317 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  357 (440)
                      |..+..++          .+..-+..|.++|++.+|.+.--
T Consensus       256 A~~yI~k~----------~~~~rv~~y~~~~~~~~A~~~A~  286 (319)
T PF04840_consen  256 ASKYIPKI----------PDEERVEMYLKCGDYKEAAQEAF  286 (319)
T ss_pred             HHHHHHhC----------ChHHHHHHHHHCCCHHHHHHHHH
Confidence            55555441          11334455555555555555433

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

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=97.71  E-value=0.003  Score=51.02  Aligned_cols=165  Identities=15%  Similarity=0.084  Sum_probs=82.9

Q ss_pred             HHHHHhcCCHHHHHHHHhhhhhcCCc----hhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccH--hhHHHHHHHHH-
Q 039362          237 IDMYAKCGAIKEALIVFHGVEKHQSD----VLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDE--ITFLGLLSACA-  309 (440)
Q Consensus       237 ~~~~~~~g~~~~A~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~--~~~~~l~~~~~-  309 (440)
                      ...+...|++.+|...|+.+....|+    ....-.++.++.+.|+++.|...++++.+.-  |+.  ..+...+.+.+ 
T Consensus        12 a~~~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~y--P~~~~~~~A~Y~~g~~~   89 (203)
T PF13525_consen   12 ALEALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKLY--PNSPKADYALYMLGLSY   89 (203)
T ss_dssp             HHHHHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH---TT-TTHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC--CCCcchhhHHHHHHHHH
Confidence            33344555555555555555544332    1223344555566666666666666655442  221  11221121111 


Q ss_pred             ------------cCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcCCCCccHhHHHHHHHHHHh
Q 039362          310 ------------HGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQMPLEPTASMLGSLLTGCMN  377 (440)
Q Consensus       310 ------------~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~p~~~~~~~l~~~~~~  377 (440)
                                  ..+...+|...|+.+++.               |=......+|...+..+.... ...-..++..|.+
T Consensus        90 ~~~~~~~~~~~~D~~~~~~A~~~~~~li~~---------------yP~S~y~~~A~~~l~~l~~~l-a~~e~~ia~~Y~~  153 (203)
T PF13525_consen   90 YKQIPGILRSDRDQTSTRKAIEEFEELIKR---------------YPNSEYAEEAKKRLAELRNRL-AEHELYIARFYYK  153 (203)
T ss_dssp             HHHHHHHH-TT---HHHHHHHHHHHHHHHH----------------TTSTTHHHHHHHHHHHHHHH-HHHHHHHHHHHHC
T ss_pred             HHhCccchhcccChHHHHHHHHHHHHHHHH---------------CcCchHHHHHHHHHHHHHHHH-HHHHHHHHHHHHH
Confidence                        112233444444444443               333333344444433331000 1111245677889


Q ss_pred             cCChhHHHHHHHHHHhcCCCCCc---hHHHHHHHHHhccChHHHH
Q 039362          378 HGKLDLAEIVGKKLVELQPDHDG---RYVGLSNVYAIFKRWDEAR  419 (440)
Q Consensus       378 ~g~~~~a~~~~~~~~~~~~~~~~---~~~~l~~~~~~~g~~~~A~  419 (440)
                      .|.+..|..-++.+++..|+.+.   .+..++.+|.+.|..+.|.
T Consensus       154 ~~~y~aA~~r~~~v~~~yp~t~~~~~al~~l~~~y~~l~~~~~a~  198 (203)
T PF13525_consen  154 RGKYKAAIIRFQYVIENYPDTPAAEEALARLAEAYYKLGLKQAAD  198 (203)
T ss_dssp             TT-HHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTT-HHHHH
T ss_pred             cccHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhCChHHHH
Confidence            99999999999999998888764   4677888888888887543

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.65  E-value=0.022  Score=46.18  Aligned_cols=134  Identities=16%  Similarity=0.052  Sum_probs=77.9

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCCcchHHH-----HH
Q 039362          266 WNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYAC-----MV  340 (440)
Q Consensus       266 ~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~-----l~  340 (440)
                      .+.++..+.-.|.+.-.+..+++.++...+-++.....|.+.-.+.|+.+.|...|++..+..-+.+....+.     ..
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            3445555566677777777777777665455556666677777777777777777776655422233333322     22


Q ss_pred             HHHHhcCCHHHHHHHHhcCC-CCc-cHhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCC
Q 039362          341 DALSRAGQVTEAYEFICQMP-LEP-TASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHD  399 (440)
Q Consensus       341 ~~~~~~~~~~~a~~~~~~~~-~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~  399 (440)
                      ..|.-.+++.+|...+.+.. ..| ++...|.-.-+..-.|+..+|++..+.+.+..|...
T Consensus       260 ~i~lg~nn~a~a~r~~~~i~~~D~~~~~a~NnKALcllYlg~l~DAiK~~e~~~~~~P~~~  320 (366)
T KOG2796|consen  260 FLHLGQNNFAEAHRFFTEILRMDPRNAVANNNKALCLLYLGKLKDALKQLEAMVQQDPRHY  320 (366)
T ss_pred             hheecccchHHHHHHHhhccccCCCchhhhchHHHHHHHHHHHHHHHHHHHHHhccCCccc
Confidence            33445566667777676662 222 223333333344446677777777777777666543

>PF06239 ECSIT: Evolutionarily conserved signalling intermediate in Toll pathway; InterPro: IPR010418 Activation of NF-kappaB as a consequence of signalling through the Toll and IL-1 receptors is a major element of innate immune responses

Probab=97.65  E-value=0.00066  Score=53.24  Aligned_cols=98  Identities=14%  Similarity=0.152  Sum_probs=82.6

Q ss_pred             HHHHhhhc--CCCChHHHHHHHHHHHc-----cCChhhHHHHHHHHHHcCCCCCcchHHHHHHHhhch------------
Q 039362           16 SCKVLSHL--SNPRIFYWNTVIRGYSK-----SKNPNKSISLFVKMLRAGVSPDHLTYPFLAKASGRL------------   76 (440)
Q Consensus        16 A~~~~~~~--~~~~~~~~~~l~~~~~~-----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~------------   76 (440)
                      -...|+..  ...|-.+|..+++.+.+     .|..+=....+..|.+-|+.-|..+|+.|++.+=+.            
T Consensus        33 ~~~~f~~~~~~~k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPKg~fvp~n~fQ~~F  112 (228)
T PF06239_consen   33 HEELFERAPGQAKDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPKGKFVPRNFFQAEF  112 (228)
T ss_pred             hHHHHHHHhhccccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCCCCcccccHHHHHh
Confidence            35566665  47788899999998875     477788888899999999999999999999987542            


Q ss_pred             ----hcHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhcCC
Q 039362           77 ----AKRELAVAVHAQIAKTGYESDLFISNSLIHMYGSCGD  113 (440)
Q Consensus        77 ----~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  113 (440)
                          .+.+-|++++++|...|+-||..++..++..+++.+.
T Consensus       113 ~hyp~Qq~c~i~lL~qME~~gV~Pd~Et~~~ll~iFG~~s~  153 (228)
T PF06239_consen  113 MHYPRQQECAIDLLEQMENNGVMPDKETEQMLLNIFGRKSH  153 (228)
T ss_pred             ccCcHHHHHHHHHHHHHHHcCCCCcHHHHHHHHHHhccccH
Confidence                2346799999999999999999999999999987775

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.63  E-value=0.0072  Score=48.85  Aligned_cols=130  Identities=10%  Similarity=0.071  Sum_probs=74.7

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC-----chhhHHHHH
Q 039362          163 WSALIDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSL-----TLPLQTSLI  237 (440)
Q Consensus       163 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-----~~~~~~~l~  237 (440)
                      .+.++..+.-.|.+.-....+++.++...+.++.....+.+.-.+.||.+.|...|+...+..-..     ...+.....
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            344555555566666666677776665545556666666666667777777777776655432222     222333334


Q ss_pred             HHHHhcCCHHHHHHHHhhhhhcCC-chhhHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 039362          238 DMYAKCGAIKEALIVFHGVEKHQS-DVLIWNAMIGGLAMHGFVKESLELFTEMQIV  292 (440)
Q Consensus       238 ~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~  292 (440)
                      ..|.-.+++..|...+.++....| ++..-|.-.-+..-.|+..+|++.++.|.+.
T Consensus       260 ~i~lg~nn~a~a~r~~~~i~~~D~~~~~a~NnKALcllYlg~l~DAiK~~e~~~~~  315 (366)
T KOG2796|consen  260 FLHLGQNNFAEAHRFFTEILRMDPRNAVANNNKALCLLYLGKLKDALKQLEAMVQQ  315 (366)
T ss_pred             hheecccchHHHHHHHhhccccCCCchhhhchHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            445555666666666666665433 3444444444444456666677777666654

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=97.60  E-value=0.0095  Score=48.12  Aligned_cols=63  Identities=19%  Similarity=0.100  Sum_probs=43.6

Q ss_pred             HHHHHHHHHccCChhhHHHHHHHHHHcCCCCC----cchHHHHHHHhhchhcHHHHHHHHHHHHHcCCC
Q 039362           31 WNTVIRGYSKSKNPNKSISLFVKMLRAGVSPD----HLTYPFLAKASGRLAKRELAVAVHAQIAKTGYE   95 (440)
Q Consensus        31 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~   95 (440)
                      .-.....+...|++.+|+..|+.+...-  |+    ....-.++.++.+.|+++.|...++..++.-+.
T Consensus         8 lY~~a~~~~~~g~y~~Ai~~f~~l~~~~--P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~yP~   74 (203)
T PF13525_consen    8 LYQKALEALQQGDYEEAIKLFEKLIDRY--PNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKLYPN   74 (203)
T ss_dssp             HHHHHHHHHHCT-HHHHHHHHHHHHHH---TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-TT
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHC--CCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCC
Confidence            3344566778899999999999988752  32    234556777788889999999999988876443

>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=97.59  E-value=0.00042  Score=44.73  Aligned_cols=54  Identities=19%  Similarity=0.208  Sum_probs=20.2

Q ss_pred             HHHHHHHhcCCHHHHHHHHhhhhhcCC-chhhHHHHHHHHHhcC-ChHHHHHHHHH
Q 039362          235 SLIDMYAKCGAIKEALIVFHGVEKHQS-DVLIWNAMIGGLAMHG-FVKESLELFTE  288 (440)
Q Consensus       235 ~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~-~~~~a~~~~~~  288 (440)
                      .+...+...|++++|+..|++..+..| +...|..+..++...| ++++|++.+++
T Consensus         8 ~~g~~~~~~~~~~~A~~~~~~ai~~~p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~   63 (69)
T PF13414_consen    8 NLGQIYFQQGDYEEAIEYFEKAIELDPNNAEAYYNLGLAYMKLGKDYEEAIEDFEK   63 (69)
T ss_dssp             HHHHHHHHTTHHHHHHHHHHHHHHHSTTHHHHHHHHHHHHHHTTTHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhCccHHHHHHHHHH
Confidence            333333333333333333333333322 2333333333333333 33444443333

...

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=97.57  E-value=0.00078  Score=57.77  Aligned_cols=127  Identities=13%  Similarity=-0.053  Sum_probs=62.9

Q ss_pred             HHHHHHHHHcCCChHHHHHHHHHHhhc----CCC-CCcchHHHHHHHHHhcCCHHHHHHHHhcC-------C-CCccHhH
Q 039362          301 FLGLLSACAHGGLVMEAWYFFKSLGKR----GMV-PKSEHYACMVDALSRAGQVTEAYEFICQM-------P-LEPTASM  367 (440)
Q Consensus       301 ~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-------~-~~p~~~~  367 (440)
                      |..|...|.-.|+++.|+...+.-...    |-+ .....+..+..++.-.|+++.|.+.|+..       + .......
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            344444444456666665544322111    111 11223445555666666666666666543       1 1122333


Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHhc----C--CCCCchHHHHHHHHHhccChHHHHHHHHHHHh
Q 039362          368 LGSLLTGCMNHGKLDLAEIVGKKLVEL----Q--PDHDGRYVGLSNVYAIFKRWDEARTTREAMET  427 (440)
Q Consensus       368 ~~~l~~~~~~~g~~~~a~~~~~~~~~~----~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  427 (440)
                      ..+|..+|.-..++++|+.++.+=+..    +  ......+.+|+.++...|..++|+.+.+.-++
T Consensus       278 cYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~DriGe~RacwSLgna~~alg~h~kAl~fae~hl~  343 (639)
T KOG1130|consen  278 CYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDRIGELRACWSLGNAFNALGEHRKALYFAELHLR  343 (639)
T ss_pred             HHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhhhHHHHHHHHHHHHH
Confidence            445555555555666666665543332    2  12223566666666666666666666555444

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=97.56  E-value=0.0076  Score=50.00  Aligned_cols=100  Identities=14%  Similarity=0.049  Sum_probs=62.0

Q ss_pred             CCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCC-chhhHHHHHHHHHhc---CChHHHHHHHHHHHHcCCCccHhhHH
Q 039362          227 SLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQS-DVLIWNAMIGGLAMH---GFVKESLELFTEMQIVGITPDEITFL  302 (440)
Q Consensus       227 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~---~~~~~a~~~~~~m~~~~~~p~~~~~~  302 (440)
                      |.|...|..|...|...|+.+.|...|....+..| +...+..+..++...   ....++..+|+++.... +.|..+..
T Consensus       153 P~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D-~~~iral~  231 (287)
T COG4235         153 PGDAEGWDLLGRAYMALGRASDALLAYRNALRLAGDNPEILLGLAEALYYQAGQQMTAKARALLRQALALD-PANIRALS  231 (287)
T ss_pred             CCCchhHHHHHHHHHHhcchhHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcC-CccHHHHH
Confidence            66666777777777777777777777776665533 455555555544432   23446666777766553 34455556


Q ss_pred             HHHHHHHcCCChHHHHHHHHHHhhc
Q 039362          303 GLLSACAHGGLVMEAWYFFKSLGKR  327 (440)
Q Consensus       303 ~l~~~~~~~~~~~~a~~~~~~~~~~  327 (440)
                      .|...+...|++.+|...|+.|.+.
T Consensus       232 lLA~~afe~g~~~~A~~~Wq~lL~~  256 (287)
T COG4235         232 LLAFAAFEQGDYAEAAAAWQMLLDL  256 (287)
T ss_pred             HHHHHHHHcccHHHHHHHHHHHHhc
Confidence            6666666677777777777777664

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=97.50  E-value=0.00019  Score=41.31  Aligned_cols=42  Identities=21%  Similarity=0.274  Sum_probs=36.9

Q ss_pred             hHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCCchHHHHHH
Q 039362          366 SMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSN  407 (440)
Q Consensus       366 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~  407 (440)
                      .++..+...+...|++++|+++++++++.+|+++..+..++.
T Consensus         2 ~~~~~la~~~~~~G~~~~A~~~~~~~l~~~P~~~~a~~~La~   43 (44)
T PF13428_consen    2 AAWLALARAYRRLGQPDEAERLLRRALALDPDDPEAWRALAQ   43 (44)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCCHHHHHHhhh
Confidence            467788999999999999999999999999999988877654

>PF06239 ECSIT: Evolutionarily conserved signalling intermediate in Toll pathway; InterPro: IPR010418 Activation of NF-kappaB as a consequence of signalling through the Toll and IL-1 receptors is a major element of innate immune responses

Probab=97.50  E-value=0.0013  Score=51.72  Aligned_cols=99  Identities=15%  Similarity=0.235  Sum_probs=67.3

Q ss_pred             HHHHhhhhhcCCchhhHHHHHHHHHh-----cCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcC-------------
Q 039362          250 LIVFHGVEKHQSDVLIWNAMIGGLAM-----HGFVKESLELFTEMQIVGITPDEITFLGLLSACAHG-------------  311 (440)
Q Consensus       250 ~~~~~~~~~~~~~~~~~~~l~~~~~~-----~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~-------------  311 (440)
                      ...|+.......+-.+|..++..|.+     .|..+=....++.|.+.|+.-|..+|+.|++.+=+.             
T Consensus        34 ~~~f~~~~~~~k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPKg~fvp~n~fQ~~F~  113 (228)
T PF06239_consen   34 EELFERAPGQAKDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPKGKFVPRNFFQAEFM  113 (228)
T ss_pred             HHHHHHHhhccccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCCCCcccccHHHHHhc
Confidence            34444444335566777777777764     467777778888899999999999999999887542             


Q ss_pred             ---CChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCC
Q 039362          312 ---GLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQ  348 (440)
Q Consensus       312 ---~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  348 (440)
                         .+-+-|++++++|...|+-||..++..+++.+.+.+.
T Consensus       114 hyp~Qq~c~i~lL~qME~~gV~Pd~Et~~~ll~iFG~~s~  153 (228)
T PF06239_consen  114 HYPRQQECAIDLLEQMENNGVMPDKETEQMLLNIFGRKSH  153 (228)
T ss_pred             cCcHHHHHHHHHHHHHHHcCCCCcHHHHHHHHHHhccccH
Confidence               2334566666666666666666666666666655443

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=97.48  E-value=0.056  Score=46.62  Aligned_cols=241  Identities=15%  Similarity=0.132  Sum_probs=96.8

Q ss_pred             cCCHHHHHHHhhCCCC-Cchh--hHHHHHHHHHhcCChHHHHHHHhhCCC--C-chhhHHHHHHHHHhcCCHHHHHHHHH
Q 039362          111 CGDIVYAREVFDGMPT-KMSV--SWNSMLDGYAKCGEMNMARQVFELMPE--R-NVVSWSALIDGYVKCGDYKEALVIFE  184 (440)
Q Consensus       111 ~g~~~~a~~~~~~~~~-~~~~--~~~~l~~~~~~~~~~~~a~~~~~~~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~  184 (440)
                      .|+++.|.+-|+.|.+ |...  -...|.-...+.|+.+.|.+.-+..-.  | -.-.+...+...+..|+|+.|+++++
T Consensus       133 eG~~~~Ar~kfeAMl~dPEtRllGLRgLyleAqr~GareaAr~yAe~Aa~~Ap~l~WA~~AtLe~r~~~gdWd~AlkLvd  212 (531)
T COG3898         133 EGDYEDARKKFEAMLDDPETRLLGLRGLYLEAQRLGAREAARHYAERAAEKAPQLPWAARATLEARCAAGDWDGALKLVD  212 (531)
T ss_pred             cCchHHHHHHHHHHhcChHHHHHhHHHHHHHHHhcccHHHHHHHHHHHHhhccCCchHHHHHHHHHHhcCChHHHHHHHH
Confidence            3555555555555543 1111  111222222344555555544444332  1 12344455555555555555555555


Q ss_pred             HHHhcC-CCCCHHH--HHHHHHHH--H-hcCChHHHHHHHHHHHHcCCCCchh-hHHHHHHHHHhcCCHHHHHHHHhhhh
Q 039362          185 EMRDVG-SKANEVT--LVSVLCAC--A-HLGALDQGRMMLRYMIDKGLSLTLP-LQTSLIDMYAKCGAIKEALIVFHGVE  257 (440)
Q Consensus       185 ~~~~~~-~~~~~~~--~~~l~~~~--~-~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~g~~~~A~~~~~~~~  257 (440)
                      .-.... +.++..-  -..|+.+-  . -..+...|...-.+..+.  .|+.. .-..-..++.+.|+..++-.+++.+-
T Consensus       213 ~~~~~~vie~~~aeR~rAvLLtAkA~s~ldadp~~Ar~~A~~a~KL--~pdlvPaav~AAralf~d~~~rKg~~ilE~aW  290 (531)
T COG3898         213 AQRAAKVIEKDVAERSRAVLLTAKAMSLLDADPASARDDALEANKL--APDLVPAAVVAARALFRDGNLRKGSKILETAW  290 (531)
T ss_pred             HHHHHHhhchhhHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHhhc--CCccchHHHHHHHHHHhccchhhhhhHHHHHH
Confidence            433221 1222211  11111111  1 112334444443333332  22211 11223345555556666555555555


Q ss_pred             hcCCchhhHHHHHHHHHhcCChHHHHHHHHHHHHc-CCCcc-HhhHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCCcch
Q 039362          258 KHQSDVLIWNAMIGGLAMHGFVKESLELFTEMQIV-GITPD-EITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEH  335 (440)
Q Consensus       258 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~-~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  335 (440)
                      +..|.+..+...+  +.+.|+  .+..-+++.... .++|| ..+...+..+-...|++..|..--+....  ..|....
T Consensus       291 K~ePHP~ia~lY~--~ar~gd--ta~dRlkRa~~L~slk~nnaes~~~va~aAlda~e~~~ARa~Aeaa~r--~~pres~  364 (531)
T COG3898         291 KAEPHPDIALLYV--RARSGD--TALDRLKRAKKLESLKPNNAESSLAVAEAALDAGEFSAARAKAEAAAR--EAPRESA  364 (531)
T ss_pred             hcCCChHHHHHHH--HhcCCC--cHHHHHHHHHHHHhcCccchHHHHHHHHHHHhccchHHHHHHHHHHhh--hCchhhH
Confidence            5544443332221  122222  222222222111 12232 23344444444555555555444443333  2345555


Q ss_pred             HHHHHHHHH-hcCCHHHHHHHHhcC
Q 039362          336 YACMVDALS-RAGQVTEAYEFICQM  359 (440)
Q Consensus       336 ~~~l~~~~~-~~~~~~~a~~~~~~~  359 (440)
                      |..|.+.-. ..|+-.++..++-+.
T Consensus       365 ~lLlAdIeeAetGDqg~vR~wlAqa  389 (531)
T COG3898         365 YLLLADIEEAETGDQGKVRQWLAQA  389 (531)
T ss_pred             HHHHHHHHhhccCchHHHHHHHHHH
Confidence            544444333 235555555555444

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=97.47  E-value=0.0016  Score=54.39  Aligned_cols=98  Identities=14%  Similarity=0.138  Sum_probs=67.4

Q ss_pred             hHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCCc----chHHHHHHHHHhcCCHHHHHHHHhcC-CCCcc----HhHHHH
Q 039362          300 TFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKS----EHYACMVDALSRAGQVTEAYEFICQM-PLEPT----ASMLGS  370 (440)
Q Consensus       300 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p~----~~~~~~  370 (440)
                      .|...+....+.|++++|+..|+.+++..  |+.    ..+..+...|...|++++|...|+.+ ...|+    ...+..
T Consensus       145 ~Y~~A~~l~~~~~~y~~Ai~af~~fl~~y--P~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~k  222 (263)
T PRK10803        145 DYNAAIALVQDKSRQDDAIVAFQNFVKKY--PDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFK  222 (263)
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHC--cCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHH
Confidence            34444444455677777777777777753  332    35566777777888888888887776 22332    345555


Q ss_pred             HHHHHHhcCChhHHHHHHHHHHhcCCCCC
Q 039362          371 LLTGCMNHGKLDLAEIVGKKLVELQPDHD  399 (440)
Q Consensus       371 l~~~~~~~g~~~~a~~~~~~~~~~~~~~~  399 (440)
                      ++..+...|+.++|..+|+++++..|.+.
T Consensus       223 lg~~~~~~g~~~~A~~~~~~vi~~yP~s~  251 (263)
T PRK10803        223 VGVIMQDKGDTAKAKAVYQQVIKKYPGTD  251 (263)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCcCCH
Confidence            66777788999999999999998888875

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=97.46  E-value=9.4e-05  Score=39.58  Aligned_cols=34  Identities=32%  Similarity=0.485  Sum_probs=31.1

Q ss_pred             HHHHHHhcCCCCCchHHHHHHHHHhccChHHHHH
Q 039362          387 VGKKLVELQPDHDGRYVGLSNVYAIFKRWDEART  420 (440)
Q Consensus       387 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  420 (440)
                      +|+++++.+|+++.+|..++.+|...|++++|++
T Consensus         1 ~y~kAie~~P~n~~a~~nla~~~~~~g~~~~A~~   34 (34)
T PF13431_consen    1 CYKKAIELNPNNAEAYNNLANLYLNQGDYEEAIA   34 (34)
T ss_pred             ChHHHHHHCCCCHHHHHHHHHHHHHCcCHHhhcC
Confidence            3688999999999999999999999999999863

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=97.42  E-value=0.00076  Score=59.35  Aligned_cols=97  Identities=14%  Similarity=0.059  Sum_probs=64.5

Q ss_pred             CcchHHHHHHHHHhcCCHHHHHHHHhcC-CCCccHh----HHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCCchHHHHH
Q 039362          332 KSEHYACMVDALSRAGQVTEAYEFICQM-PLEPTAS----MLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLS  406 (440)
Q Consensus       332 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p~~~----~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~  406 (440)
                      +...++.+..+|...|++++|+..|++. .+.|+..    .|..+..+|...|+.++|+..++++++..+.   .|..+.
T Consensus        74 ~a~a~~NLG~AL~~lGryeEAIa~f~rALeL~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALelsn~---~f~~i~  150 (453)
T PLN03098         74 TAEDAVNLGLSLFSKGRVKDALAQFETALELNPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRDYNL---KFSTIL  150 (453)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcch---hHHHHH
Confidence            3456777888888888888888888885 6677643    4778888888888888888888888886322   222111


Q ss_pred             H--HHHhccChHHHHHHHHHHHhcCCc
Q 039362          407 N--VYAIFKRWDEARTTREAMETRGVK  431 (440)
Q Consensus       407 ~--~~~~~g~~~~A~~~~~~~~~~~~~  431 (440)
                      .  .+....+.++..++++.+..-|.+
T Consensus       151 ~DpdL~plR~~pef~eLlee~rk~G~~  177 (453)
T PLN03098        151 NDPDLAPFRASPEFKELQEEARKGGED  177 (453)
T ss_pred             hCcchhhhcccHHHHHHHHHHHHhCCc
Confidence            1  112233445667777777766653

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=97.42  E-value=0.049  Score=50.08  Aligned_cols=255  Identities=13%  Similarity=0.103  Sum_probs=124.6

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHhhCCCCchhhHHHHHHHHHhcCCHHHH
Q 039362          100 ISNSLIHMYGSCGDIVYAREVFDGMPTKMSVSWNSMLDGYAKCGEMNMARQVFELMPERNVVSWSALIDGYVKCGDYKEA  179 (440)
Q Consensus       100 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  179 (440)
                      .+.+-+..|...|.+++|.++----.  ....|.-|.......=+++-|.+.|.++..                -.+-+.
T Consensus       558 p~~~~m~q~Ieag~f~ea~~iaclgV--v~~DW~~LA~~ALeAL~f~~ARkAY~rVRd----------------l~~L~l  619 (1081)
T KOG1538|consen  558 PQSAPMYQYIERGLFKEAYQIACLGV--TDTDWRELAMEALEALDFETARKAYIRVRD----------------LRYLEL  619 (1081)
T ss_pred             cccccchhhhhccchhhhhcccccce--ecchHHHHHHHHHhhhhhHHHHHHHHHHhc----------------cHHHHH
Confidence            34444555666777766654321111  112244444333333344444444333321                123344


Q ss_pred             HHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHhhh---
Q 039362          180 LVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGV---  256 (440)
Q Consensus       180 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~---  256 (440)
                      ..-++++.+.|-.|+...   +...++-.|++.+|.++|.+-   |..      +..++.|.....++.|.++....   
T Consensus       620 i~EL~~~k~rge~P~~iL---lA~~~Ay~gKF~EAAklFk~~---G~e------nRAlEmyTDlRMFD~aQE~~~~g~~~  687 (1081)
T KOG1538|consen  620 ISELEERKKRGETPNDLL---LADVFAYQGKFHEAAKLFKRS---GHE------NRALEMYTDLRMFDYAQEFLGSGDPK  687 (1081)
T ss_pred             HHHHHHHHhcCCCchHHH---HHHHHHhhhhHHHHHHHHHHc---Cch------hhHHHHHHHHHHHHHHHHHhhcCChH
Confidence            445666777776676643   344556677777777777543   211      12233333333333333333221   


Q ss_pred             ---------hhcCCchhhHHHHHHHHHhcCChHHHHHHHHH------HHHcCC---CccHhhHHHHHHHHHcCCChHHHH
Q 039362          257 ---------EKHQSDVLIWNAMIGGLAMHGFVKESLELFTE------MQIVGI---TPDEITFLGLLSACAHGGLVMEAW  318 (440)
Q Consensus       257 ---------~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~------m~~~~~---~p~~~~~~~l~~~~~~~~~~~~a~  318 (440)
                               .+...++.--.+....+...|+.++|..+..+      +.+-+.   ..+..+...+...+.+...+.-|-
T Consensus       688 eKKmL~RKRA~WAr~~kePkaAAEmLiSaGe~~KAi~i~~d~gW~d~lidI~rkld~~ere~l~~~a~ylk~l~~~gLAa  767 (1081)
T KOG1538|consen  688 EKKMLIRKRADWARNIKEPKAAAEMLISAGEHVKAIEICGDHGWVDMLIDIARKLDKAEREPLLLCATYLKKLDSPGLAA  767 (1081)
T ss_pred             HHHHHHHHHHHHhhhcCCcHHHHHHhhcccchhhhhhhhhcccHHHHHHHHHhhcchhhhhHHHHHHHHHhhccccchHH
Confidence                     11111111112334445556666666654321      111111   223334444444455566666777


Q ss_pred             HHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcC-CCCccHhH-----------HHHHHHHHHhcCChhHHHH
Q 039362          319 YFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQM-PLEPTASM-----------LGSLLTGCMNHGKLDLAEI  386 (440)
Q Consensus       319 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p~~~~-----------~~~l~~~~~~~g~~~~a~~  386 (440)
                      ++|.+|-..         ..+++.....+++++|..+-++. +..|++..           +...-.+|.+.|+..+|.+
T Consensus       768 eIF~k~gD~---------ksiVqlHve~~~W~eAFalAe~hPe~~~dVy~pyaqwLAE~DrFeEAqkAfhkAGr~~EA~~  838 (1081)
T KOG1538|consen  768 EIFLKMGDL---------KSLVQLHVETQRWDEAFALAEKHPEFKDDVYMPYAQWLAENDRFEEAQKAFHKAGRQREAVQ  838 (1081)
T ss_pred             HHHHHhccH---------HHHhhheeecccchHhHhhhhhCccccccccchHHHHhhhhhhHHHHHHHHHHhcchHHHHH
Confidence            777766432         24666777888888888888877 44444321           2222345556666666766


Q ss_pred             HHHHHHh
Q 039362          387 VGKKLVE  393 (440)
Q Consensus       387 ~~~~~~~  393 (440)
                      +++++..
T Consensus       839 vLeQLtn  845 (1081)
T KOG1538|consen  839 VLEQLTN  845 (1081)
T ss_pred             HHHHhhh
Confidence            6666543

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=97.41  E-value=0.055  Score=47.33  Aligned_cols=163  Identities=15%  Similarity=0.036  Sum_probs=83.0

Q ss_pred             HHHHHHHhcCCHHHHHHHHhhhhhcC----C-chhhHHHHHHHHHh---cCChHHHHHHHHHHHHcCCCccHhhHHHHHH
Q 039362          235 SLIDMYAKCGAIKEALIVFHGVEKHQ----S-DVLIWNAMIGGLAM---HGFVKESLELFTEMQIVGITPDEITFLGLLS  306 (440)
Q Consensus       235 ~l~~~~~~~g~~~~A~~~~~~~~~~~----~-~~~~~~~l~~~~~~---~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~  306 (440)
                      .++-+|....+++..+++++.+....    + ....-....-++.+   .|+.++|.+++..+......+++.+|..+.+
T Consensus       146 ~lllSyRdiqdydamI~Lve~l~~~p~~~~~~~~~i~~~yafALnRrn~~gdre~Al~il~~~l~~~~~~~~d~~gL~GR  225 (374)
T PF13281_consen  146 NLLLSYRDIQDYDAMIKLVETLEALPTCDVANQHNIKFQYAFALNRRNKPGDREKALQILLPVLESDENPDPDTLGLLGR  225 (374)
T ss_pred             HHHHHhhhhhhHHHHHHHHHHhhccCccchhcchHHHHHHHHHHhhcccCCCHHHHHHHHHHHHhccCCCChHHHHHHHH
Confidence            34444555555555555555554321    0 11111122233444   5666666666666444444555666665555


Q ss_pred             HHHc---------CCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCC-HH---HHHHHH---hc-----C--CCCc
Q 039362          307 ACAH---------GGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQ-VT---EAYEFI---CQ-----M--PLEP  363 (440)
Q Consensus       307 ~~~~---------~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~---~a~~~~---~~-----~--~~~p  363 (440)
                      .|-.         ....++|+..|.+.-+.  .|+...=-.++..+.-.|. .+   +..++-   ..     -  .-..
T Consensus       226 IyKD~~~~s~~~d~~~ldkAi~~Y~kgFe~--~~~~Y~GIN~AtLL~~~g~~~~~~~el~~i~~~l~~llg~kg~~~~~~  303 (374)
T PF13281_consen  226 IYKDLFLESNFTDRESLDKAIEWYRKGFEI--EPDYYSGINAATLLMLAGHDFETSEELRKIGVKLSSLLGRKGSLEKMQ  303 (374)
T ss_pred             HHHHHHHHcCccchHHHHHHHHHHHHHHcC--CccccchHHHHHHHHHcCCcccchHHHHHHHHHHHHHHHhhccccccc
Confidence            5421         12356666666665553  2433322122222222332 11   222221   11     0  1223


Q ss_pred             cHhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCC
Q 039362          364 TASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHD  399 (440)
Q Consensus       364 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~  399 (440)
                      +-..+.+++.++.-.|++++|.+.++++.++.|+..
T Consensus       304 dYWd~ATl~Ea~vL~~d~~ka~~a~e~~~~l~~~~W  339 (374)
T PF13281_consen  304 DYWDVATLLEASVLAGDYEKAIQAAEKAFKLKPPAW  339 (374)
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCcch
Confidence            445566788888899999999999999999876654

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.37  E-value=0.14  Score=48.70  Aligned_cols=163  Identities=9%  Similarity=0.022  Sum_probs=107.3

Q ss_pred             ChhhHHHHhhhcC-CCCh--HHHHHHHHHHHccCChhhHHHHHHHHHHcCCCCCcchHHHHHHHhhchhcHHHHHHHHHH
Q 039362           12 NIDYSCKVLSHLS-NPRI--FYWNTVIRGYSKSKNPNKSISLFVKMLRAGVSPDHLTYPFLAKASGRLAKRELAVAVHAQ   88 (440)
Q Consensus        12 ~~~~A~~~~~~~~-~~~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~   88 (440)
                      -++-|..+-.... .++.  .......+.+.+.|++++|...|-+.+.. +.|     ..+|.-+....+...-..+++.
T Consensus       349 ly~~Ai~LAk~~~~d~d~~~~i~~kYgd~Ly~Kgdf~~A~~qYI~tI~~-le~-----s~Vi~kfLdaq~IknLt~YLe~  422 (933)
T KOG2114|consen  349 LYKVAINLAKSQHLDEDTLAEIHRKYGDYLYGKGDFDEATDQYIETIGF-LEP-----SEVIKKFLDAQRIKNLTSYLEA  422 (933)
T ss_pred             hHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHccc-CCh-----HHHHHHhcCHHHHHHHHHHHHH
Confidence            3444555544332 2221  23455566788899999999988776543 333     4467777778888888899999


Q ss_pred             HHHcCCCCcHHHHHHHHHHHHhcCCHHHHHHHhhCCCCCchh--hHHHHHHHHHhcCChHHHHHHHhhCCCCchhhHHHH
Q 039362           89 IAKTGYESDLFISNSLIHMYGSCGDIVYAREVFDGMPTKMSV--SWNSMLDGYAKCGEMNMARQVFELMPERNVVSWSAL  166 (440)
Q Consensus        89 ~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~--~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l  166 (440)
                      +.+.|.. +..--+.|+.+|.+.++.++-.+..+...+ ...  -....+..+.+.+-.++|.-+-.+... ....... 
T Consensus       423 L~~~gla-~~dhttlLLncYiKlkd~~kL~efI~~~~~-g~~~fd~e~al~Ilr~snyl~~a~~LA~k~~~-he~vl~i-  498 (933)
T KOG2114|consen  423 LHKKGLA-NSDHTTLLLNCYIKLKDVEKLTEFISKCDK-GEWFFDVETALEILRKSNYLDEAELLATKFKK-HEWVLDI-  498 (933)
T ss_pred             HHHcccc-cchhHHHHHHHHHHhcchHHHHHHHhcCCC-cceeeeHHHHHHHHHHhChHHHHHHHHHHhcc-CHHHHHH-
Confidence            9999876 556667899999999999999888887762 222  244555666666666666655544433 2222222 


Q ss_pred             HHHHHhcCCHHHHHHHHHHH
Q 039362          167 IDGYVKCGDYKEALVIFEEM  186 (440)
Q Consensus       167 ~~~~~~~~~~~~a~~~~~~~  186 (440)
                        .+-..+++++|++.+..+
T Consensus       499 --lle~~~ny~eAl~yi~sl  516 (933)
T KOG2114|consen  499 --LLEDLHNYEEALRYISSL  516 (933)
T ss_pred             --HHHHhcCHHHHHHHHhcC
Confidence              334567889998888775

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=97.33  E-value=0.098  Score=46.12  Aligned_cols=201  Identities=14%  Similarity=0.112  Sum_probs=95.6

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhH-------HHHHHHHHh----cCCHHHHHHHHhhhhhcCCchh
Q 039362          196 VTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQ-------TSLIDMYAK----CGAIKEALIVFHGVEKHQSDVL  264 (440)
Q Consensus       196 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-------~~l~~~~~~----~g~~~~A~~~~~~~~~~~~~~~  264 (440)
                      .+|..++....+.++...|.+.+.-+.-..  |+...-       ..+-+..+.    .-+..+=+.+|+.+...+.|..
T Consensus       299 ~~F~~~Ls~~Vk~~~T~~a~q~l~lL~~ld--p~~svs~Kllls~~~lq~Iv~~DD~~~Tklr~yL~lwe~~qs~DiDrq  376 (549)
T PF07079_consen  299 DRFGNLLSFKVKQVQTEEAKQYLALLKILD--PRISVSEKLLLSPKVLQDIVCEDDESYTKLRDYLNLWEEIQSYDIDRQ  376 (549)
T ss_pred             HHHHHHHHHHHHHHhHHHHHHHHHHHHhcC--CcchhhhhhhcCHHHHHHHHhcchHHHHHHHHHHHHHHHHHhhcccHH
Confidence            456666666677777777776666554332  221111       112222221    1122233444444442222211


Q ss_pred             -hHHHH---HHHHHhcCC-hHHHHHHHHHHHHcCCCccHh----hHHHHHHHHH---cCCChHHHHHHHHHHhhcCCCCC
Q 039362          265 -IWNAM---IGGLAMHGF-VKESLELFTEMQIVGITPDEI----TFLGLLSACA---HGGLVMEAWYFFKSLGKRGMVPK  332 (440)
Q Consensus       265 -~~~~l---~~~~~~~~~-~~~a~~~~~~m~~~~~~p~~~----~~~~l~~~~~---~~~~~~~a~~~~~~~~~~~~~~~  332 (440)
                       .-.-+   ..-+-+.|. -++|+++++...+-. +-|..    ++..+=.+|.   ....+..-..+-+-+.+.|+.|-
T Consensus       377 QLvh~L~~~Ak~lW~~g~~dekalnLLk~il~ft-~yD~ec~n~v~~fvKq~Y~qaLs~~~~~rLlkLe~fi~e~gl~~i  455 (549)
T PF07079_consen  377 QLVHYLVFGAKHLWEIGQCDEKALNLLKLILQFT-NYDIECENIVFLFVKQAYKQALSMHAIPRLLKLEDFITEVGLTPI  455 (549)
T ss_pred             HHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHhc-cccHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCCcc
Confidence             11111   122333343 566777777665531 11211    1222222222   12334444444444455566553


Q ss_pred             cc----hHHHHHHH--HHhcCCHHHHHHHHhcC-CCCccHhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCCchHH
Q 039362          333 SE----HYACMVDA--LSRAGQVTEAYEFICQM-PLEPTASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYV  403 (440)
Q Consensus       333 ~~----~~~~l~~~--~~~~~~~~~a~~~~~~~-~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~  403 (440)
                      ..    .-|.|.++  +..+|++.++.-.-.-. .+.|++.+|..++-+.....++++|..++..+    |++..++.
T Consensus       456 ~i~e~eian~LaDAEyLysqgey~kc~~ys~WL~~iaPS~~~~RLlGl~l~e~k~Y~eA~~~l~~L----P~n~~~~d  529 (549)
T PF07079_consen  456 TISEEEIANFLADAEYLYSQGEYHKCYLYSSWLTKIAPSPQAYRLLGLCLMENKRYQEAWEYLQKL----PPNERMRD  529 (549)
T ss_pred             cccHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCCcHHHHHHHHHHHHHHhhHHHHHHHHHhC----CCchhhHH
Confidence            22    23333332  44667777776554444 66777777777777777777777777777665    55555444

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>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=97.32  E-value=0.00074  Score=44.82  Aligned_cols=62  Identities=18%  Similarity=0.168  Sum_probs=45.4

Q ss_pred             hHHHHHHHHHHhcCChhHHHHHHHHHHhc----CCCC---CchHHHHHHHHHhccChHHHHHHHHHHHh
Q 039362          366 SMLGSLLTGCMNHGKLDLAEIVGKKLVEL----QPDH---DGRYVGLSNVYAIFKRWDEARTTREAMET  427 (440)
Q Consensus       366 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~----~~~~---~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  427 (440)
                      .+++.+...+...|++++|+..++++++.    ++.+   ..++..++.++...|++++|.+.+++..+
T Consensus         6 ~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~   74 (78)
T PF13424_consen    6 NAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKALD   74 (78)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            56777888888888888888888888764    2222   23577788888888888888888887654

...

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=97.30  E-value=0.0034  Score=54.05  Aligned_cols=130  Identities=12%  Similarity=0.010  Sum_probs=72.5

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHH----HcCCC-CchhhHHHHHHHHHhcCCHHHHHHHHhhhhhc-------CCchh
Q 039362          197 TLVSVLCACAHLGALDQGRMMLRYMI----DKGLS-LTLPLQTSLIDMYAKCGAIKEALIVFHGVEKH-------QSDVL  264 (440)
Q Consensus       197 ~~~~l~~~~~~~~~~~~a~~~~~~~~----~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-------~~~~~  264 (440)
                      .|..+...|.-.|+++.|+...+.-+    +-|-. .....+..+..++.-.|+++.|.+.|+.....       .....
T Consensus       197 a~GnLGNTyYlLGdf~~ai~~H~~RL~ia~efGDrAaeRRA~sNlgN~hiflg~fe~A~ehYK~tl~LAielg~r~vEAQ  276 (639)
T KOG1130|consen  197 AYGNLGNTYYLLGDFDQAIHFHKLRLEIAQEFGDRAAERRAHSNLGNCHIFLGNFELAIEHYKLTLNLAIELGNRTVEAQ  276 (639)
T ss_pred             hhcccCceeeeeccHHHHHHHHHHHHHHHHHhhhHHHHHHhhcccchhhhhhcccHhHHHHHHHHHHHHHHhcchhHHHH
Confidence            34445555555667777766554422    22211 22345566777777777777777777654321       11233


Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHH----HcC-CCccHhhHHHHHHHHHcCCChHHHHHHHHHHhh
Q 039362          265 IWNAMIGGLAMHGFVKESLELFTEMQ----IVG-ITPDEITFLGLLSACAHGGLVMEAWYFFKSLGK  326 (440)
Q Consensus       265 ~~~~l~~~~~~~~~~~~a~~~~~~m~----~~~-~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  326 (440)
                      +.-.|...|.-..++++|+..+.+-.    +.+ ..-....+..|..++...|..++|+.+.....+
T Consensus       277 scYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~DriGe~RacwSLgna~~alg~h~kAl~fae~hl~  343 (639)
T KOG1130|consen  277 SCYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDRIGELRACWSLGNAFNALGEHRKALYFAELHLR  343 (639)
T ss_pred             HHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhhhHHHHHHHHHHHHH
Confidence            44456666666666777776665422    111 122335666777777777777777766655444

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=97.29  E-value=0.027  Score=51.63  Aligned_cols=90  Identities=13%  Similarity=0.158  Sum_probs=63.6

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCCchhh--------
Q 039362          194 NEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQSDVLI--------  265 (440)
Q Consensus       194 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~--------  265 (440)
                      +..+...+..-+.+...+.-|.++|..|-+.         ..+++.....++|++|..+-++.++..||+..        
T Consensus       746 ere~l~~~a~ylk~l~~~gLAaeIF~k~gD~---------ksiVqlHve~~~W~eAFalAe~hPe~~~dVy~pyaqwLAE  816 (1081)
T KOG1538|consen  746 EREPLLLCATYLKKLDSPGLAAEIFLKMGDL---------KSLVQLHVETQRWDEAFALAEKHPEFKDDVYMPYAQWLAE  816 (1081)
T ss_pred             hhhHHHHHHHHHhhccccchHHHHHHHhccH---------HHHhhheeecccchHhHhhhhhCccccccccchHHHHhhh
Confidence            3345555555556667778888888777533         34677778888999998888888776665432        


Q ss_pred             ---HHHHHHHHHhcCChHHHHHHHHHHHHc
Q 039362          266 ---WNAMIGGLAMHGFVKESLELFTEMQIV  292 (440)
Q Consensus       266 ---~~~l~~~~~~~~~~~~a~~~~~~m~~~  292 (440)
                         |...-++|.+.|+..+|.++++++...
T Consensus       817 ~DrFeEAqkAfhkAGr~~EA~~vLeQLtnn  846 (1081)
T KOG1538|consen  817 NDRFEEAQKAFHKAGRQREAVQVLEQLTNN  846 (1081)
T ss_pred             hhhHHHHHHHHHHhcchHHHHHHHHHhhhh
Confidence               333446788889999999999987654

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=97.29  E-value=0.0021  Score=41.98  Aligned_cols=50  Identities=12%  Similarity=0.023  Sum_probs=19.3

Q ss_pred             hcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHhhhh
Q 039362          207 HLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVE  257 (440)
Q Consensus       207 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  257 (440)
                      +.+++++|.++++.+...+ |.+...+.....++...|++++|...|+.+.
T Consensus         7 ~~~~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l   56 (73)
T PF13371_consen    7 QQEDYEEALEVLERALELD-PDDPELWLQRARCLFQLGRYEEALEDLERAL   56 (73)
T ss_pred             hCCCHHHHHHHHHHHHHhC-cccchhhHHHHHHHHHhccHHHHHHHHHHHH
Confidence            3334444444444433333 2333333333333333444444444333333

>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=97.28  E-value=0.00094  Score=50.79  Aligned_cols=69  Identities=22%  Similarity=0.238  Sum_probs=53.8

Q ss_pred             hHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCCchHHHHHHHHHhccChHHHHHHHHHHHh-----cCCccCC
Q 039362          366 SMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEARTTREAMET-----RGVKKYP  434 (440)
Q Consensus       366 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-----~~~~~~~  434 (440)
                      .....++..+...|++++|..++++++..+|-+...+..++.+|...|+..+|.+.|+++.+     .|+.|.|
T Consensus        63 ~~~~~l~~~~~~~~~~~~a~~~~~~~l~~dP~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~  136 (146)
T PF03704_consen   63 DALERLAEALLEAGDYEEALRLLQRALALDPYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSP  136 (146)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----H
T ss_pred             HHHHHHHHHHHhccCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCH
Confidence            44556777788899999999999999999999999999999999999999999999988854     3665544

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=97.27  E-value=0.16  Score=47.33  Aligned_cols=156  Identities=8%  Similarity=0.053  Sum_probs=98.8

Q ss_pred             cCChhhHHHHHHHHHHcCCCCCcchHHHHHHHhhchhcHHHHHHHHHHHHHc-CCCCcHHHHHHHHHHHHhcCCHHHHHH
Q 039362           41 SKNPNKSISLFVKMLRAGVSPDHLTYPFLAKASGRLAKRELAVAVHAQIAKT-GYESDLFISNSLIHMYGSCGDIVYARE  119 (440)
Q Consensus        41 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~a~~  119 (440)
                      -|.+++|.++|-+|-+++         ..|....+.|++-.+.+++..--.. +-..-...++.+...++....++.|.+
T Consensus       747 ~g~feeaek~yld~drrD---------LAielr~klgDwfrV~qL~r~g~~d~dD~~~e~A~r~ig~~fa~~~~We~A~~  817 (1189)
T KOG2041|consen  747 YGEFEEAEKLYLDADRRD---------LAIELRKKLGDWFRVYQLIRNGGSDDDDEGKEDAFRNIGETFAEMMEWEEAAK  817 (1189)
T ss_pred             hcchhHhhhhhhccchhh---------hhHHHHHhhhhHHHHHHHHHccCCCcchHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            477888888887776542         3456667778877666655331100 001123577888888888888888888


Q ss_pred             HhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHhhCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHH
Q 039362          120 VFDGMPTKMSVSWNSMLDGYAKCGEMNMARQVFELMPERNVVSWSALIDGYVKCGDYKEALVIFEEMRDVGSKANEVTLV  199 (440)
Q Consensus       120 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  199 (440)
                      .+..-..     ....+.++.+..++++.+.+-..+++ +....-.+...+.+.|.-++|.+.+-+..    .|.     
T Consensus       818 yY~~~~~-----~e~~~ecly~le~f~~LE~la~~Lpe-~s~llp~~a~mf~svGMC~qAV~a~Lr~s----~pk-----  882 (1189)
T KOG2041|consen  818 YYSYCGD-----TENQIECLYRLELFGELEVLARTLPE-DSELLPVMADMFTSVGMCDQAVEAYLRRS----LPK-----  882 (1189)
T ss_pred             HHHhccc-----hHhHHHHHHHHHhhhhHHHHHHhcCc-ccchHHHHHHHHHhhchHHHHHHHHHhcc----CcH-----
Confidence            8876543     12356677777777777777777764 44455667777778888887777664432    221     


Q ss_pred             HHHHHHHhcCChHHHHHHHHH
Q 039362          200 SVLCACAHLGALDQGRMMLRY  220 (440)
Q Consensus       200 ~l~~~~~~~~~~~~a~~~~~~  220 (440)
                      ..+..|...+++.+|.++-+.
T Consensus       883 aAv~tCv~LnQW~~avelaq~  903 (1189)
T KOG2041|consen  883 AAVHTCVELNQWGEAVELAQR  903 (1189)
T ss_pred             HHHHHHHHHHHHHHHHHHHHh
Confidence            234556666777777666544

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=97.22  E-value=0.13  Score=45.33  Aligned_cols=68  Identities=16%  Similarity=0.235  Sum_probs=51.2

Q ss_pred             cccccccccCChhhHHHHhhhcCCCCh---HHHHHHHHHHHccCChhhHHHHHHHHHHcCCCCCcchHHHHHHHh
Q 039362            2 LSFSALSYLGNIDYSCKVLSHLSNPRI---FYWNTVIRGYSKSKNPNKSISLFVKMLRAGVSPDHLTYPFLAKAS   73 (440)
Q Consensus         2 ~~~y~~~~~g~~~~A~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~   73 (440)
                      |+-|...  |..++.+++++.+..|-+   .+|...+++-...+++.....+|.+......  +...|..-+..-
T Consensus        49 iq~~~tq--~s~~~~re~yeq~~~pfp~~~~aw~ly~s~ELA~~df~svE~lf~rCL~k~l--~ldLW~lYl~YI  119 (660)
T COG5107          49 IQYLETQ--ESMDAEREMYEQLSSPFPIMEHAWRLYMSGELARKDFRSVESLFGRCLKKSL--NLDLWMLYLEYI  119 (660)
T ss_pred             HHHHhhh--hhHHHHHHHHHHhcCCCccccHHHHHHhcchhhhhhHHHHHHHHHHHHhhhc--cHhHHHHHHHHH
Confidence            3445555  889999999999987654   4798889888888999999999999887643  445555555443

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=97.21  E-value=0.086  Score=42.98  Aligned_cols=172  Identities=17%  Similarity=0.137  Sum_probs=91.5

Q ss_pred             HhcCCHHHHHHHHhhhhhcCCc----hhhHHHHHHHHHhcCChHHHHHHHHHHHHcC-CCccHhhHHHHHHHHHc-----
Q 039362          241 AKCGAIKEALIVFHGVEKHQSD----VLIWNAMIGGLAMHGFVKESLELFTEMQIVG-ITPDEITFLGLLSACAH-----  310 (440)
Q Consensus       241 ~~~g~~~~A~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~-~~p~~~~~~~l~~~~~~-----  310 (440)
                      .+.|++++|.+.|+.+....|.    ..+.-.++-++.+.++++.|+...++..... -.|| .-|...+.+++.     
T Consensus        45 L~~gn~~~A~~~fe~l~~~~p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~lyP~~~n-~dY~~YlkgLs~~~~i~  123 (254)
T COG4105          45 LQKGNYEEAIKYFEALDSRHPFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRLYPTHPN-ADYAYYLKGLSYFFQID  123 (254)
T ss_pred             HhcCCHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCCCCCC-hhHHHHHHHHHHhccCC
Confidence            4567777777777777655442    2233445556667777777777777766543 2222 234444444432     


Q ss_pred             --CCChHH---HHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcCCCCccH--hHHHHHHHHHHhcCChhH
Q 039362          311 --GGLVME---AWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQMPLEPTA--SMLGSLLTGCMNHGKLDL  383 (440)
Q Consensus       311 --~~~~~~---a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~p~~--~~~~~l~~~~~~~g~~~~  383 (440)
                        ..+...   |..-|+.++..  -||..-             ...|...+..+.   |.  ..=..+.+-|.+.|.+..
T Consensus       124 ~~~rDq~~~~~A~~~f~~~i~r--yPnS~Y-------------a~dA~~~i~~~~---d~LA~~Em~IaryY~kr~~~~A  185 (254)
T COG4105         124 DVTRDQSAARAAFAAFKELVQR--YPNSRY-------------APDAKARIVKLN---DALAGHEMAIARYYLKRGAYVA  185 (254)
T ss_pred             ccccCHHHHHHHHHHHHHHHHH--CCCCcc-------------hhhHHHHHHHHH---HHHHHHHHHHHHHHHHhcChHH
Confidence              122222   33333333332  122110             011111111000   00  011245566888888888


Q ss_pred             HHHHHHHHHhcCCCCCc---hHHHHHHHHHhccChHHHHHHHHHHHhcCCcc
Q 039362          384 AEIVGKKLVELQPDHDG---RYVGLSNVYAIFKRWDEARTTREAMETRGVKK  432 (440)
Q Consensus       384 a~~~~~~~~~~~~~~~~---~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~  432 (440)
                      |..-++.+++.-|..+.   .+..+..+|...|-.++|.+.-+-+ ..+.+.
T Consensus       186 A~nR~~~v~e~y~~t~~~~eaL~~l~eaY~~lgl~~~a~~~~~vl-~~N~p~  236 (254)
T COG4105         186 AINRFEEVLENYPDTSAVREALARLEEAYYALGLTDEAKKTAKVL-GANYPD  236 (254)
T ss_pred             HHHHHHHHHhccccccchHHHHHHHHHHHHHhCChHHHHHHHHHH-HhcCCC
Confidence            98889988887666554   4566777888888888887765443 444433

>PRK15331 chaperone protein SicA; Provisional

Probab=97.15  E-value=0.027  Score=42.56  Aligned_cols=92  Identities=11%  Similarity=-0.050  Sum_probs=59.2

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcC
Q 039362          165 ALIDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCG  244 (440)
Q Consensus       165 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  244 (440)
                      ....-+...|++++|..+|.-+...+ .-+..-+..|..++-..+++++|...|......+ ..|+..+-....+|...|
T Consensus        42 ~~Ay~~y~~Gk~~eA~~~F~~L~~~d-~~n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~-~~dp~p~f~agqC~l~l~  119 (165)
T PRK15331         42 AHAYEFYNQGRLDEAETFFRFLCIYD-FYNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLL-KNDYRPVFFTGQCQLLMR  119 (165)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhC-cCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc-cCCCCccchHHHHHHHhC
Confidence            34445566777777777777766543 2334444555666666777777777777765554 344455555677777777


Q ss_pred             CHHHHHHHHhhhhh
Q 039362          245 AIKEALIVFHGVEK  258 (440)
Q Consensus       245 ~~~~A~~~~~~~~~  258 (440)
                      +.+.|+..|..+..
T Consensus       120 ~~~~A~~~f~~a~~  133 (165)
T PRK15331        120 KAAKARQCFELVNE  133 (165)
T ss_pred             CHHHHHHHHHHHHh
Confidence            77777777777664

>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=97.14  E-value=0.021  Score=43.32  Aligned_cols=69  Identities=25%  Similarity=0.311  Sum_probs=37.5

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHhhc-----CCCCCcch
Q 039362          266 WNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKR-----GMVPKSEH  335 (440)
Q Consensus       266 ~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~~~~~~~~  335 (440)
                      ...++..+...|++++|..+.+.+.... +.+...+..++.++...|+...|.+.|+++...     |+.|+..+
T Consensus        65 ~~~l~~~~~~~~~~~~a~~~~~~~l~~d-P~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~  138 (146)
T PF03704_consen   65 LERLAEALLEAGDYEEALRLLQRALALD-PYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPET  138 (146)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHHHHHS-TT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHH
T ss_pred             HHHHHHHHHhccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHH
Confidence            3444555566666666666666666553 445556666666666666666666666655432     55555444

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=97.13  E-value=0.015  Score=42.83  Aligned_cols=89  Identities=17%  Similarity=0.170  Sum_probs=61.7

Q ss_pred             HHHHHhcCCHHHHHHHHhcC----CCCc-cHhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCCch---HHHHHHHHHh
Q 039362          340 VDALSRAGQVTEAYEFICQM----PLEP-TASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGR---YVGLSNVYAI  411 (440)
Q Consensus       340 ~~~~~~~~~~~~a~~~~~~~----~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~---~~~l~~~~~~  411 (440)
                      .....+.|++++|.+.|+.+    +..| ....-..++.++.+.|++++|...+++.++++|.++.+   +...+.++.+
T Consensus        17 a~~~l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~vdYa~Y~~gL~~~~   96 (142)
T PF13512_consen   17 AQEALQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPNVDYAYYMRGLSYYE   96 (142)
T ss_pred             HHHHHHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCCccHHHHHHHHHHHH
Confidence            44456778888888888877    1122 22445567888889999999999999999999887763   3344444445


Q ss_pred             ccC---------------hHHHHHHHHHHHhc
Q 039362          412 FKR---------------WDEARTTREAMETR  428 (440)
Q Consensus       412 ~g~---------------~~~A~~~~~~~~~~  428 (440)
                      ...               ..+|..-|+++++.
T Consensus        97 ~~~~~~~~~~~~drD~~~~~~A~~~f~~lv~~  128 (142)
T PF13512_consen   97 QDEGSLQSFFRSDRDPTPARQAFRDFEQLVRR  128 (142)
T ss_pred             HhhhHHhhhcccccCcHHHHHHHHHHHHHHHH
Confidence            444               66788888887764

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.11  E-value=0.06  Score=43.27  Aligned_cols=204  Identities=15%  Similarity=0.135  Sum_probs=92.9

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHH
Q 039362          161 VSWSALIDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMY  240 (440)
Q Consensus       161 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  240 (440)
                      ..|..-..+|...+++++|...+.+..+. ..-+...|.       ..+.++.|..+.+++.+.  +.-...++.-...|
T Consensus        32 s~yekAAvafRnAk~feKakdcLlkA~~~-yEnnrslfh-------AAKayEqaamLake~~kl--sEvvdl~eKAs~lY  101 (308)
T KOG1585|consen   32 SLYEKAAVAFRNAKKFEKAKDCLLKASKG-YENNRSLFH-------AAKAYEQAAMLAKELSKL--SEVVDLYEKASELY  101 (308)
T ss_pred             HHHHHHHHHHHhhccHHHHHHHHHHHHHH-HHhcccHHH-------HHHHHHHHHHHHHHHHHh--HHHHHHHHHHHHHH
Confidence            34555556666666777766666555421 111111111       112234444444444332  22233445555666


Q ss_pred             HhcCCHHHHHHHHhhhhhcCCchhhHHHHHHHHHhcCChHHHHHHHHHHHHcCC--CccH---hhHHHHHHHHHcCCChH
Q 039362          241 AKCGAIKEALIVFHGVEKHQSDVLIWNAMIGGLAMHGFVKESLELFTEMQIVGI--TPDE---ITFLGLLSACAHGGLVM  315 (440)
Q Consensus       241 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~--~p~~---~~~~~l~~~~~~~~~~~  315 (440)
                      ..+|..+.|-..+++.-+              .....++++|++++++....-.  ..+.   .-+...-+.+.+...+.
T Consensus       102 ~E~GspdtAAmaleKAak--------------~lenv~Pd~AlqlYqralavve~~dr~~ma~el~gk~sr~lVrl~kf~  167 (308)
T KOG1585|consen  102 VECGSPDTAAMALEKAAK--------------ALENVKPDDALQLYQRALAVVEEDDRDQMAFELYGKCSRVLVRLEKFT  167 (308)
T ss_pred             HHhCCcchHHHHHHHHHH--------------HhhcCCHHHHHHHHHHHHHHHhccchHHHHHHHHHHhhhHhhhhHHhh
Confidence            666666666555554432              1223345555555554322100  0111   12233334455555665


Q ss_pred             HHHHHHHHHhhc--CC--CCC-cchHHHHHHHHHhcCCHHHHHHHHhcC---C--C-CccHhHHHHHHHHHHhcCChhHH
Q 039362          316 EAWYFFKSLGKR--GM--VPK-SEHYACMVDALSRAGQVTEAYEFICQM---P--L-EPTASMLGSLLTGCMNHGKLDLA  384 (440)
Q Consensus       316 ~a~~~~~~~~~~--~~--~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~---~--~-~p~~~~~~~l~~~~~~~g~~~~a  384 (440)
                      +|-..+.+-...  .+  -++ -..|-..|-.+....++..|...++.-   +  . .-+..+...|+.+| ..||.+++
T Consensus       168 Eaa~a~lKe~~~~~~~~~y~~~~k~~va~ilv~L~~~Dyv~aekc~r~~~qip~f~~sed~r~lenLL~ay-d~gD~E~~  246 (308)
T KOG1585|consen  168 EAATAFLKEGVAADKCDAYNSQCKAYVAAILVYLYAHDYVQAEKCYRDCSQIPAFLKSEDSRSLENLLTAY-DEGDIEEI  246 (308)
T ss_pred             HHHHHHHHhhhHHHHHhhcccHHHHHHHHHHHHhhHHHHHHHHHHhcchhcCccccChHHHHHHHHHHHHh-ccCCHHHH
Confidence            555544433221  00  111 112344444555566777777777663   1  1 12445566666665 45666655


Q ss_pred             HHHHH
Q 039362          385 EIVGK  389 (440)
Q Consensus       385 ~~~~~  389 (440)
                      ..++.
T Consensus       247 ~kvl~  251 (308)
T KOG1585|consen  247 KKVLS  251 (308)
T ss_pred             HHHHc
Confidence            55443

>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=97.07  E-value=0.0013  Score=43.61  Aligned_cols=60  Identities=18%  Similarity=0.222  Sum_probs=37.7

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHhcC-------C-CCcc-HhHHHHHHHHHHhcCChhHHHHHHHHHHhc
Q 039362          335 HYACMVDALSRAGQVTEAYEFICQM-------P-LEPT-ASMLGSLLTGCMNHGKLDLAEIVGKKLVEL  394 (440)
Q Consensus       335 ~~~~l~~~~~~~~~~~~a~~~~~~~-------~-~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  394 (440)
                      +++.+...|...|++++|++.+++.       + ..|+ ..++..+..++...|++++|++.++++.+.
T Consensus         7 ~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~i   75 (78)
T PF13424_consen    7 AYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKALDI   75 (78)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            4455555666666666666655554       1 1122 356677778888888888888888877653

...

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=97.05  E-value=0.0064  Score=49.75  Aligned_cols=98  Identities=19%  Similarity=0.191  Sum_probs=42.5

Q ss_pred             HHHHHHHHHcCCChHHHHHHHHHHhhcCC--CCCcchHHHHHHHHHhcCCHHHHHHHHhcC----CCCc-cHhHHHHHHH
Q 039362          301 FLGLLSACAHGGLVMEAWYFFKSLGKRGM--VPKSEHYACMVDALSRAGQVTEAYEFICQM----PLEP-TASMLGSLLT  373 (440)
Q Consensus       301 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~----~~~p-~~~~~~~l~~  373 (440)
                      |+.-+..+ +.|++..|..-|...++...  .-....+..|..++...|++++|..+|..+    +-.| -+..+..|..
T Consensus       145 Y~~A~~~~-ksgdy~~A~~~F~~fi~~YP~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKlg~  223 (262)
T COG1729         145 YNAALDLY-KSGDYAEAEQAFQAFIKKYPNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKLGV  223 (262)
T ss_pred             HHHHHHHH-HcCCHHHHHHHHHHHHHcCCCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHHHH
Confidence            44443332 33445555555555555410  111222333445555555555554444444    1111 1233444444


Q ss_pred             HHHhcCChhHHHHHHHHHHhcCCCCC
Q 039362          374 GCMNHGKLDLAEIVGKKLVELQPDHD  399 (440)
Q Consensus       374 ~~~~~g~~~~a~~~~~~~~~~~~~~~  399 (440)
                      +..+.|+.++|...|+++.+..|..+
T Consensus       224 ~~~~l~~~d~A~atl~qv~k~YP~t~  249 (262)
T COG1729         224 SLGRLGNTDEACATLQQVIKRYPGTD  249 (262)
T ss_pred             HHHHhcCHHHHHHHHHHHHHHCCCCH
Confidence            44445555555555555555444443

>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=97.05  E-value=0.014  Score=41.70  Aligned_cols=141  Identities=15%  Similarity=0.130  Sum_probs=81.7

Q ss_pred             HHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHH
Q 039362          273 LAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEA  352 (440)
Q Consensus       273 ~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  352 (440)
                      +.-.|..++..++..+....   .+..-++.++--....-+=+-..+.++.+-+-   .|..          .+|+....
T Consensus        12 ~ildG~V~qGveii~k~v~S---sni~E~NWvICNiiDaa~C~yvv~~LdsIGki---FDis----------~C~NlKrV   75 (161)
T PF09205_consen   12 RILDGDVKQGVEIIEKTVNS---SNIKEYNWVICNIIDAADCDYVVETLDSIGKI---FDIS----------KCGNLKRV   75 (161)
T ss_dssp             HHHTT-HHHHHHHHHHHHHH---S-HHHHTHHHHHHHHH--HHHHHHHHHHHGGG---S-GG----------G-S-THHH
T ss_pred             HHHhchHHHHHHHHHHHcCc---CCccccceeeeecchhhchhHHHHHHHHHhhh---cCch----------hhcchHHH
Confidence            34468888888888887753   34445666554444333444444444444332   2211          22333333


Q ss_pred             HHHHhcCCCCccHhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCCchHHHHHHHHHhccChHHHHHHHHHHHhcCCc
Q 039362          353 YEFICQMPLEPTASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEARTTREAMETRGVK  431 (440)
Q Consensus       353 ~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  431 (440)
                      ...+-.++  .+.......+..+..+|+-+.-.+++..+.+.+..+|..+..++.+|.+.|+..++.+++.+.-+.|++
T Consensus        76 i~C~~~~n--~~se~vD~ALd~lv~~~kkDqLdki~~~l~kn~~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG~k  152 (161)
T PF09205_consen   76 IECYAKRN--KLSEYVDLALDILVKQGKKDQLDKIYNELKKNEEINPEFLVKIANAYKKLGNTREANELLKEACEKGLK  152 (161)
T ss_dssp             HHHHHHTT-----HHHHHHHHHHHHTT-HHHHHHHHHHH-----S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT-H
T ss_pred             HHHHHHhc--chHHHHHHHHHHHHHhccHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhchH
Confidence            33333332  234455666777889999999999999988877778889999999999999999999999999988874

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=97.02  E-value=0.15  Score=42.26  Aligned_cols=222  Identities=23%  Similarity=0.182  Sum_probs=120.9

Q ss_pred             CCHHHHHHHHHHHHhcCCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHHc-CCCCchhhHHHHHHHHHhcCCHHHHHH
Q 039362          174 GDYKEALVIFEEMRDVGSKA-NEVTLVSVLCACAHLGALDQGRMMLRYMIDK-GLSLTLPLQTSLIDMYAKCGAIKEALI  251 (440)
Q Consensus       174 ~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~A~~  251 (440)
                      +....+...+.......... ....+......+...+.+..+...+...... ........+......+...+++..+..
T Consensus        37 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  116 (291)
T COG0457          37 GELAEALELLEEALELLPNSDLAGLLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALE  116 (291)
T ss_pred             hhHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHHH
Confidence            45555555555554442111 2455555666666777777777776666542 224445555666666666677777777


Q ss_pred             HHhhhhhcCCch-hhHHHHHH-HHHhcCChHHHHHHHHHHHHcCCCc----cHhhHHHHHHHHHcCCChHHHHHHHHHHh
Q 039362          252 VFHGVEKHQSDV-LIWNAMIG-GLAMHGFVKESLELFTEMQIVGITP----DEITFLGLLSACAHGGLVMEAWYFFKSLG  325 (440)
Q Consensus       252 ~~~~~~~~~~~~-~~~~~l~~-~~~~~~~~~~a~~~~~~m~~~~~~p----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  325 (440)
                      .+.......++. ........ .+...|+++.+...+.+....  .|    ....+......+...++.+.+...+....
T Consensus       117 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~  194 (291)
T COG0457         117 LLEKALALDPDPDLAEALLALGALYELGDYEEALELYEKALEL--DPELNELAEALLALGALLEALGRYEEALELLEKAL  194 (291)
T ss_pred             HHHHHHcCCCCcchHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHH
Confidence            777766543332 22222222 566677777777777776442  22    22233333333445566667776666666


Q ss_pred             hcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcC-CCCcc-HhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCC
Q 039362          326 KRGMVPKSEHYACMVDALSRAGQVTEAYEFICQM-PLEPT-ASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPD  397 (440)
Q Consensus       326 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  397 (440)
                      ..........+..+...+...++++.|...+... ...|+ ...+..+...+...+..+.+...+.+.....|.
T Consensus       195 ~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  268 (291)
T COG0457         195 KLNPDDDAEALLNLGLLYLKLGKYEEALEYYEKALELDPDNAEALYNLALLLLELGRYEEALEALEKALELDPD  268 (291)
T ss_pred             hhCcccchHHHHHhhHHHHHcccHHHHHHHHHHHHhhCcccHHHHhhHHHHHHHcCCHHHHHHHHHHHHHhCcc
Confidence            5421112344555556666666666666666665 33333 233333444444555566666666666666655

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=96.88  E-value=0.0052  Score=53.00  Aligned_cols=126  Identities=15%  Similarity=0.094  Sum_probs=95.3

Q ss_pred             HHHHHHHcCCChHHHHHHHHHHhhc-C----CCC---------CcchHHHHHHHHHhcCCHHHHHHHHhcC-CCCc-cHh
Q 039362          303 GLLSACAHGGLVMEAWYFFKSLGKR-G----MVP---------KSEHYACMVDALSRAGQVTEAYEFICQM-PLEP-TAS  366 (440)
Q Consensus       303 ~l~~~~~~~~~~~~a~~~~~~~~~~-~----~~~---------~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~  366 (440)
                      .-...+.+.|++..|..-|+++... +    ..+         -..++..+..++.+.+++.+|++..++. ...| |..
T Consensus       213 e~Gn~~fK~gk~~~A~~~Yerav~~l~~~~~~~~ee~~~~~~~k~~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~~~N~K  292 (397)
T KOG0543|consen  213 ERGNVLFKEGKFKLAKKRYERAVSFLEYRRSFDEEEQKKAEALKLACHLNLAACYLKLKEYKEAIESCNKVLELDPNNVK  292 (397)
T ss_pred             HhhhHHHhhchHHHHHHHHHHHHHHhhccccCCHHHHHHHHHHHHHHhhHHHHHHHhhhhHHHHHHHHHHHHhcCCCchh
Confidence            3456778899999999999986653 1    111         1234667788888999999999988887 4444 566


Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCCchHHHHHHHHHhccChHH-HHHHHHHHHhc
Q 039362          367 MLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDE-ARTTREAMETR  428 (440)
Q Consensus       367 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~-A~~~~~~~~~~  428 (440)
                      .+..=..++...|+++.|+..|+++++..|.|..+-..+..+-.+..++.+ ..++|..|...
T Consensus       293 ALyRrG~A~l~~~e~~~A~~df~ka~k~~P~Nka~~~el~~l~~k~~~~~~kekk~y~~mF~k  355 (397)
T KOG0543|consen  293 ALYRRGQALLALGEYDLARDDFQKALKLEPSNKAARAELIKLKQKIREYEEKEKKMYANMFAK  355 (397)
T ss_pred             HHHHHHHHHHhhccHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence            666778889999999999999999999999998777777777666655544 47888888765

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=96.75  E-value=0.18  Score=39.94  Aligned_cols=27  Identities=22%  Similarity=0.213  Sum_probs=14.1

Q ss_pred             hHHHHHHHHHhccChHHHHHHHHHHHh
Q 039362          401 RYVGLSNVYAIFKRWDEARTTREAMET  427 (440)
Q Consensus       401 ~~~~l~~~~~~~g~~~~A~~~~~~~~~  427 (440)
                      +|.-++.-+...|+.++|..+|+-.+.
T Consensus       239 tyFYL~K~~l~~G~~~~A~~LfKLaia  265 (297)
T COG4785         239 TYFYLGKYYLSLGDLDEATALFKLAVA  265 (297)
T ss_pred             HHHHHHHHHhccccHHHHHHHHHHHHH
Confidence            444555555555555555555554443

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=96.69  E-value=0.39  Score=42.22  Aligned_cols=98  Identities=12%  Similarity=0.127  Sum_probs=49.5

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhcC---CCCCHHHHHHHHHHHHh---cCChHHHHHHHHHHHHcCCCCchhhHHHHHH
Q 039362          165 ALIDGYVKCGDYKEALVIFEEMRDVG---SKANEVTLVSVLCACAH---LGALDQGRMMLRYMIDKGLSLTLPLQTSLID  238 (440)
Q Consensus       165 ~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~l~~~~~~---~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  238 (440)
                      .++-+|....+++...++++.+....   +.-....-....-++.+   .|+.++|.+++..++.....+++.++..+..
T Consensus       146 ~lllSyRdiqdydamI~Lve~l~~~p~~~~~~~~~i~~~yafALnRrn~~gdre~Al~il~~~l~~~~~~~~d~~gL~GR  225 (374)
T PF13281_consen  146 NLLLSYRDIQDYDAMIKLVETLEALPTCDVANQHNIKFQYAFALNRRNKPGDREKALQILLPVLESDENPDPDTLGLLGR  225 (374)
T ss_pred             HHHHHhhhhhhHHHHHHHHHHhhccCccchhcchHHHHHHHHHHhhcccCCCHHHHHHHHHHHHhccCCCChHHHHHHHH
Confidence            44445666666666666666665431   11111111222333444   5666666666666544444566666665555


Q ss_pred             HHHh---------cCCHHHHHHHHhhhhhcCCc
Q 039362          239 MYAK---------CGAIKEALIVFHGVEKHQSD  262 (440)
Q Consensus       239 ~~~~---------~g~~~~A~~~~~~~~~~~~~  262 (440)
                      .|-.         ....++|+..|.+.-+..|+
T Consensus       226 IyKD~~~~s~~~d~~~ldkAi~~Y~kgFe~~~~  258 (374)
T PF13281_consen  226 IYKDLFLESNFTDRESLDKAIEWYRKGFEIEPD  258 (374)
T ss_pred             HHHHHHHHcCccchHHHHHHHHHHHHHHcCCcc
Confidence            5432         11255566666655544443

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=96.69  E-value=0.049  Score=44.79  Aligned_cols=91  Identities=21%  Similarity=0.225  Sum_probs=58.8

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHhcC-C------CCccHhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCC---chHHH
Q 039362          335 HYACMVDALSRAGQVTEAYEFICQM-P------LEPTASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHD---GRYVG  404 (440)
Q Consensus       335 ~~~~l~~~~~~~~~~~~a~~~~~~~-~------~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~---~~~~~  404 (440)
                      .|+.-+. +.+.|++.+|...|... .      ..|+..-|  |..++...|++++|..+|..+.+..|.++   ..+..
T Consensus       144 ~Y~~A~~-~~ksgdy~~A~~~F~~fi~~YP~s~~~~nA~yW--LGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallK  220 (262)
T COG1729         144 LYNAALD-LYKSGDYAEAEQAFQAFIKKYPNSTYTPNAYYW--LGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLK  220 (262)
T ss_pred             HHHHHHH-HHHcCCHHHHHHHHHHHHHcCCCCcccchhHHH--HHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHH
Confidence            4554444 34556677777777665 1      22333333  66777777777777777777777665543   45677


Q ss_pred             HHHHHHhccChHHHHHHHHHHHhc
Q 039362          405 LSNVYAIFKRWDEARTTREAMETR  428 (440)
Q Consensus       405 l~~~~~~~g~~~~A~~~~~~~~~~  428 (440)
                      ++.+..+.|+.++|...|+++.+.
T Consensus       221 lg~~~~~l~~~d~A~atl~qv~k~  244 (262)
T COG1729         221 LGVSLGRLGNTDEACATLQQVIKR  244 (262)
T ss_pred             HHHHHHHhcCHHHHHHHHHHHHHH
Confidence            777777777777777777777654

>PRK11906 transcriptional regulator; Provisional

Probab=96.68  E-value=0.1  Score=46.52  Aligned_cols=108  Identities=13%  Similarity=0.023  Sum_probs=67.8

Q ss_pred             ChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcC-CCCccH-hHHHHHHHHHHhcCChhHHHHHHHH
Q 039362          313 LVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQM-PLEPTA-SMLGSLLTGCMNHGKLDLAEIVGKK  390 (440)
Q Consensus       313 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p~~-~~~~~l~~~~~~~g~~~~a~~~~~~  390 (440)
                      +..+|.+.-++..+.+ .-|......+..+....++++.|..+|++. .+.||. .+|......+.-.|+.++|.+.+++
T Consensus       319 ~~~~a~~~A~rAveld-~~Da~a~~~~g~~~~~~~~~~~a~~~f~rA~~L~Pn~A~~~~~~~~~~~~~G~~~~a~~~i~~  397 (458)
T PRK11906        319 AAQKALELLDYVSDIT-TVDGKILAIMGLITGLSGQAKVSHILFEQAKIHSTDIASLYYYRALVHFHNEKIEEARICIDK  397 (458)
T ss_pred             HHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHhhcchhhHHHHHHHHhhcCCccHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            3445566666666654 235666666666667777788888888877 566654 4555555566677888888888888


Q ss_pred             HHhcCCCCCch--HHHHHHHHHhccChHHHHHHH
Q 039362          391 LVELQPDHDGR--YVGLSNVYAIFKRWDEARTTR  422 (440)
Q Consensus       391 ~~~~~~~~~~~--~~~l~~~~~~~g~~~~A~~~~  422 (440)
                      +.+++|....+  .-..++.|+.. ..++|.+++
T Consensus       398 alrLsP~~~~~~~~~~~~~~~~~~-~~~~~~~~~  430 (458)
T PRK11906        398 SLQLEPRRRKAVVIKECVDMYVPN-PLKNNIKLY  430 (458)
T ss_pred             HhccCchhhHHHHHHHHHHHHcCC-chhhhHHHH
Confidence            88887766543  22233345444 355666555

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=96.68  E-value=0.034  Score=48.18  Aligned_cols=64  Identities=8%  Similarity=-0.034  Sum_probs=33.2

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCCc
Q 039362          198 LVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQSD  262 (440)
Q Consensus       198 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  262 (440)
                      +..+..++.+.+++..|++.....+..+ +++....-.-..++...|+++.|+..|+++.+..|+
T Consensus       260 ~lNlA~c~lKl~~~~~Ai~~c~kvLe~~-~~N~KALyRrG~A~l~~~e~~~A~~df~ka~k~~P~  323 (397)
T KOG0543|consen  260 HLNLAACYLKLKEYKEAIESCNKVLELD-PNNVKALYRRGQALLALGEYDLARDDFQKALKLEPS  323 (397)
T ss_pred             hhHHHHHHHhhhhHHHHHHHHHHHHhcC-CCchhHHHHHHHHHHhhccHHHHHHHHHHHHHhCCC
Confidence            3344445555555555555555555544 444444444455555555555555555555555553

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=96.59  E-value=0.029  Score=40.14  Aligned_cols=51  Identities=20%  Similarity=0.130  Sum_probs=24.7

Q ss_pred             HHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcC
Q 039362          308 CAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQM  359 (440)
Q Consensus       308 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  359 (440)
                      ....|+.+.|++.|.+.+..- +-....||.-.+++.-.|+.++|++-+++.
T Consensus        53 laE~g~Ld~AlE~F~qal~l~-P~raSayNNRAQa~RLq~~~e~ALdDLn~A  103 (175)
T KOG4555|consen   53 LAEAGDLDGALELFGQALCLA-PERASAYNNRAQALRLQGDDEEALDDLNKA  103 (175)
T ss_pred             HHhccchHHHHHHHHHHHHhc-ccchHhhccHHHHHHHcCChHHHHHHHHHH
Confidence            344455555555555544421 113444555555555555555555555444

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=96.58  E-value=0.055  Score=46.15  Aligned_cols=224  Identities=14%  Similarity=0.026  Sum_probs=113.5

Q ss_pred             HHhcCCHHHHHHHHHHHHhcC--CCCCHHHHHHHHHHHHhcCChHHHHHHHHH----HHHcCC-CCchhhHHHHHHHHHh
Q 039362          170 YVKCGDYKEALVIFEEMRDVG--SKANEVTLVSVLCACAHLGALDQGRMMLRY----MIDKGL-SLTLPLQTSLIDMYAK  242 (440)
Q Consensus       170 ~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~----~~~~~~-~~~~~~~~~l~~~~~~  242 (440)
                      +....+.++|+..+.+-...-  ..--..++..+..+.+..|.++++...---    ..+..- ..-...|..+..++.+
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            445677888888777665431  111224566666777777777766543221    111110 0111234444444544


Q ss_pred             cCCHHHHHHHHhhhhhc---CC---chhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCC-----ccHhhHHHHHHHHHcC
Q 039362          243 CGAIKEALIVFHGVEKH---QS---DVLIWNAMIGGLAMHGFVKESLELFTEMQIVGIT-----PDEITFLGLLSACAHG  311 (440)
Q Consensus       243 ~g~~~~A~~~~~~~~~~---~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~-----p~~~~~~~l~~~~~~~  311 (440)
                      .-++.+++.+-+.-...   .|   .....-++..++...+.++++++.|+.....-..     .....+..|...|.+.
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            44555555444433322   11   1122334555666667777777777765432111     1124566677777777


Q ss_pred             CChHHHHHHHHHHhhc----CCCCCcchHH-----HHHHHHHhcCCHHHHHHHHhcC-------CCCc-cHhHHHHHHHH
Q 039362          312 GLVMEAWYFFKSLGKR----GMVPKSEHYA-----CMVDALSRAGQVTEAYEFICQM-------PLEP-TASMLGSLLTG  374 (440)
Q Consensus       312 ~~~~~a~~~~~~~~~~----~~~~~~~~~~-----~l~~~~~~~~~~~~a~~~~~~~-------~~~p-~~~~~~~l~~~  374 (440)
                      .++++|.-+..+..+.    ++..-...|.     .+.-++...|+.-.|.+..++.       |-+| .......+...
T Consensus       176 ~D~~Kal~f~~kA~~lv~s~~l~d~~~kyr~~~lyhmaValR~~G~LgdA~e~C~Ea~klal~~Gdra~~arc~~~~aDI  255 (518)
T KOG1941|consen  176 KDYEKALFFPCKAAELVNSYGLKDWSLKYRAMSLYHMAVALRLLGRLGDAMECCEEAMKLALQHGDRALQARCLLCFADI  255 (518)
T ss_pred             HhhhHHhhhhHhHHHHHHhcCcCchhHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHhCChHHHHHHHHHHHHH
Confidence            7777777666655443    2111111122     2333455566655555555543       2222 12334455566


Q ss_pred             HHhcCChhHHHHHHHHHHh
Q 039362          375 CMNHGKLDLAEIVGKKLVE  393 (440)
Q Consensus       375 ~~~~g~~~~a~~~~~~~~~  393 (440)
                      |...|+.+.|..-|+.+..
T Consensus       256 yR~~gd~e~af~rYe~Am~  274 (518)
T KOG1941|consen  256 YRSRGDLERAFRRYEQAMG  274 (518)
T ss_pred             HHhcccHhHHHHHHHHHHH
Confidence            6677777776666666543

>KOG1258 consensus mRNA processing protein [RNA processing and modification]

Probab=96.56  E-value=0.62  Score=42.93  Aligned_cols=382  Identities=13%  Similarity=0.107  Sum_probs=218.2

Q ss_pred             ChHHHHHHHHHHHccCChhhHHHHHHHHHHcCCCCCcc-hHHHHHHHhhchhcHHHHHHHHHHHHHcCCCCcHHHHHHHH
Q 039362           27 RIFYWNTVIRGYSKSKNPNKSISLFVKMLRAGVSPDHL-TYPFLAKASGRLAKRELAVAVHAQIAKTGYESDLFISNSLI  105 (440)
Q Consensus        27 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  105 (440)
                      +...|+.++.---.....+.+..++..+...  .|-.. -|......=.+.|..+.+.++|++.+.. ++.+...+....
T Consensus        44 ~f~~wt~li~~~~~~~~~~~~r~~y~~fL~k--yPl~~gyW~kfA~~E~klg~~~~s~~Vfergv~a-ip~SvdlW~~Y~  120 (577)
T KOG1258|consen   44 DFDAWTTLIQENDSIEDVDALREVYDIFLSK--YPLCYGYWKKFADYEYKLGNAENSVKVFERGVQA-IPLSVDLWLSYL  120 (577)
T ss_pred             cccchHHHHhccCchhHHHHHHHHHHHHHhh--CccHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHh-hhhHHHHHHHHH
Confidence            3446777776555555666777777777754  34433 4566666667788899999999998865 556677776655


Q ss_pred             HHHH-hcCCHHHHHHHhhCCCC------CchhhHHHHHHHHHhcCChHHHHHHHhhCCCCchhhHHHHHHHHH---hc--
Q 039362          106 HMYG-SCGDIVYAREVFDGMPT------KMSVSWNSMLDGYAKCGEMNMARQVFELMPERNVVSWSALIDGYV---KC--  173 (440)
Q Consensus       106 ~~~~-~~g~~~~a~~~~~~~~~------~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~---~~--  173 (440)
                      ..+. ..|+.+.....|+....      .....|...+.--..++++.....+++++.+-....|+..-..|.   ..  
T Consensus       121 ~f~~n~~~d~~~lr~~fe~A~~~vG~dF~S~~lWdkyie~en~qks~k~v~~iyeRileiP~~~~~~~f~~f~~~l~~~~  200 (577)
T KOG1258|consen  121 AFLKNNNGDPETLRDLFERAKSYVGLDFLSDPLWDKYIEFENGQKSWKRVANIYERILEIPLHQLNRHFDRFKQLLNQNE  200 (577)
T ss_pred             HHHhccCCCHHHHHHHHHHHHHhcccchhccHHHHHHHHHHhccccHHHHHHHHHHHHhhhhhHhHHHHHHHHHHHhcCC
Confidence            5443 45777777778876654      244568888888888889999999998887633332222222221   11  


Q ss_pred             ----CCHHHHHHHHHHHHh--------------------cCCCCCHH--HHHHHHHH-------HHhcCChHHHHHHHHH
Q 039362          174 ----GDYKEALVIFEEMRD--------------------VGSKANEV--TLVSVLCA-------CAHLGALDQGRMMLRY  220 (440)
Q Consensus       174 ----~~~~~a~~~~~~~~~--------------------~~~~~~~~--~~~~l~~~-------~~~~~~~~~a~~~~~~  220 (440)
                          ...+++.++-.....                    .+.+.+..  ..+.+...       +............++.
T Consensus       201 ~~~l~~~d~~~~l~~~~~~~~~~~~~~~~~e~~~~~v~~~~~~s~~l~~~~~~l~~~~~~~~~~~~~s~~~~~kr~~fE~  280 (577)
T KOG1258|consen  201 EKILLSIDELIQLRSDVAERSKITHSQEPLEELEIGVKDSTDPSKSLTEEKTILKRIVSIHEKVYQKSEEEEEKRWGFEE  280 (577)
T ss_pred             hhhhcCHHHHHHHhhhHHhhhhcccccChhHHHHHHHhhccCccchhhHHHHHHHHHHHHHHHHHHhhHhHHHHHHhhhh
Confidence                122222222221111                    00000000  01111111       1111111122222222


Q ss_pred             HHHcC-------CCCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhc-CCchhhHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 039362          221 MIDKG-------LSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKH-QSDVLIWNAMIGGLAMHGFVKESLELFTEMQIV  292 (440)
Q Consensus       221 ~~~~~-------~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~  292 (440)
                      -.+..       .++....|...+..-.+.|+.+...-+|++..-- ..-...|-..+.-....|+.+-|..++....+-
T Consensus       281 ~IkrpYfhvkpl~~aql~nw~~yLdf~i~~g~~~~~~~l~ercli~cA~Y~efWiky~~~m~~~~~~~~~~~~~~~~~~i  360 (577)
T KOG1258|consen  281 GIKRPYFHVKPLDQAQLKNWRYYLDFEITLGDFSRVFILFERCLIPCALYDEFWIKYARWMESSGDVSLANNVLARACKI  360 (577)
T ss_pred             hccccccccCcccHHHHHHHHHHhhhhhhcccHHHHHHHHHHHHhHHhhhHHHHHHHHHHHHHcCchhHHHHHHHhhhhh
Confidence            22211       1223456777777888889999999888887621 112334544555555558888888887776554


Q ss_pred             CCCccHhhHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCCcc-hHHHHHHHHHhcCCHHHHH---HHHhcC-CCCccHhH
Q 039362          293 GITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSE-HYACMVDALSRAGQVTEAY---EFICQM-PLEPTASM  367 (440)
Q Consensus       293 ~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~---~~~~~~-~~~p~~~~  367 (440)
                      .++..+.+-..-...+-..|++..|..+++.+.+.-  |+.. .-..-+....+.|..+.+.   +++... ...-+..+
T Consensus       361 ~~k~~~~i~L~~a~f~e~~~n~~~A~~~lq~i~~e~--pg~v~~~l~~~~~e~r~~~~~~~~~~~~l~s~~~~~~~~~~i  438 (577)
T KOG1258|consen  361 HVKKTPIIHLLEARFEESNGNFDDAKVILQRIESEY--PGLVEVVLRKINWERRKGNLEDANYKNELYSSIYEGKENNGI  438 (577)
T ss_pred             cCCCCcHHHHHHHHHHHhhccHHHHHHHHHHHHhhC--CchhhhHHHHHhHHHHhcchhhhhHHHHHHHHhcccccCcch
Confidence            433332222111222345689999999999988753  4322 2222344456777777777   444433 22223333


Q ss_pred             HHHHHHH-----HHhcCChhHHHHHHHHHHhcCCCCCchHHHHHHHHHhcc
Q 039362          368 LGSLLTG-----CMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFK  413 (440)
Q Consensus       368 ~~~l~~~-----~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  413 (440)
                      ...+..-     +.-.++.+.|..++.++.+..|++...|..++......+
T Consensus       439 ~~~l~~~~~r~~~~i~~d~~~a~~~l~~~~~~~~~~k~~~~~~~~~~~~~~  489 (577)
T KOG1258|consen  439 LEKLYVKFARLRYKIREDADLARIILLEANDILPDCKVLYLELIRFELIQP  489 (577)
T ss_pred             hHHHHHHHHHHHHHHhcCHHHHHHHHHHhhhcCCccHHHHHHHHHHHHhCC
Confidence            3333222     334678999999999999999999888888888776655

>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=96.54  E-value=0.3  Score=44.54  Aligned_cols=157  Identities=14%  Similarity=0.163  Sum_probs=87.6

Q ss_pred             HHHHccCChhhHHHHHHHHH-HcCCCCCcchHHHHHHHhhchhcHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhcCCH
Q 039362           36 RGYSKSKNPNKSISLFVKML-RAGVSPDHLTYPFLAKASGRLAKRELAVAVHAQIAKTGYESDLFISNSLIHMYGSCGDI  114 (440)
Q Consensus        36 ~~~~~~~~~~~a~~~~~~~~-~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  114 (440)
                      ....-+|+++++.++.+.-. -..++  ......++..+.+.|.++.|+++..         |+.   .-.+...+.|++
T Consensus       269 k~av~~~d~~~v~~~i~~~~ll~~i~--~~~~~~i~~fL~~~G~~e~AL~~~~---------D~~---~rFeLAl~lg~L  334 (443)
T PF04053_consen  269 KTAVLRGDFEEVLRMIAASNLLPNIP--KDQGQSIARFLEKKGYPELALQFVT---------DPD---HRFELALQLGNL  334 (443)
T ss_dssp             HHHHHTT-HHH-----HHHHTGGG----HHHHHHHHHHHHHTT-HHHHHHHSS----------HH---HHHHHHHHCT-H
T ss_pred             HHHHHcCChhhhhhhhhhhhhcccCC--hhHHHHHHHHHHHCCCHHHHHhhcC---------ChH---HHhHHHHhcCCH
Confidence            33455677777766664211 11121  3346777777778888887777432         322   234455677888


Q ss_pred             HHHHHHhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHhhCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCC
Q 039362          115 VYAREVFDGMPTKMSVSWNSMLDGYAKCGEMNMARQVFELMPERNVVSWSALIDGYVKCGDYKEALVIFEEMRDVGSKAN  194 (440)
Q Consensus       115 ~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  194 (440)
                      +.|.++.++..  +...|..|.....+.|+++-|++.|.+..+     |..|+-.|.-.|+.+...++.+.....|    
T Consensus       335 ~~A~~~a~~~~--~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~d-----~~~L~lLy~~~g~~~~L~kl~~~a~~~~----  403 (443)
T PF04053_consen  335 DIALEIAKELD--DPEKWKQLGDEALRQGNIELAEECYQKAKD-----FSGLLLLYSSTGDREKLSKLAKIAEERG----  403 (443)
T ss_dssp             HHHHHHCCCCS--THHHHHHHHHHHHHTTBHHHHHHHHHHCT------HHHHHHHHHHCT-HHHHHHHHHHHHHTT----
T ss_pred             HHHHHHHHhcC--cHHHHHHHHHHHHHcCCHHHHHHHHHhhcC-----ccccHHHHHHhCCHHHHHHHHHHHHHcc----
Confidence            88888877665  445777777777777777777777777653     4455556666777766666666655554    


Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHH
Q 039362          195 EVTLVSVLCACAHLGALDQGRMMLR  219 (440)
Q Consensus       195 ~~~~~~l~~~~~~~~~~~~a~~~~~  219 (440)
                        -++....++.-.|+.++..+++.
T Consensus       404 --~~n~af~~~~~lgd~~~cv~lL~  426 (443)
T PF04053_consen  404 --DINIAFQAALLLGDVEECVDLLI  426 (443)
T ss_dssp             ---HHHHHHHHHHHT-HHHHHHHHH
T ss_pred             --CHHHHHHHHHHcCCHHHHHHHHH
Confidence              23333444445566666665554

This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the WD-associated region found in coatomer subunits alpha, beta and beta' subunits. The alpha-subunit (RET1P) of the coatomer complex in Saccharomyces cerevisiae (Baker's yeast), participates in membrane transport between the endoplasmic reticulum and Golgi apparatus. The protein contains six WD-40 repeat motifs in its N-terminal region []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006886 intracellular protein transport, 0016192 vesicle-mediated transport, 0030117 membrane coat; PDB: 3MKQ_B.

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=96.52  E-value=0.1  Score=46.54  Aligned_cols=61  Identities=8%  Similarity=-0.130  Sum_probs=28.6

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCch---hhHHHHHHHHHhcCCHHHHHHHHhhhh
Q 039362          196 VTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTL---PLQTSLIDMYAKCGAIKEALIVFHGVE  257 (440)
Q Consensus       196 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~g~~~~A~~~~~~~~  257 (440)
                      ..+..+..+|...|++++|...|++.++.+ +.+.   .+|..+..+|...|+.++|+..+++..
T Consensus        76 ~a~~NLG~AL~~lGryeEAIa~f~rALeL~-Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrAL  139 (453)
T PLN03098         76 EDAVNLGLSLFSKGRVKDALAQFETALELN-PNPDEAQAAYYNKACCHAYREEGKKAADCLRTAL  139 (453)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            344444445555555555555555544443 2112   224445555555555555555555444

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=96.47  E-value=0.4  Score=39.58  Aligned_cols=196  Identities=22%  Similarity=0.140  Sum_probs=88.8

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHhhhhh--c-CCchhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHH-
Q 039362          231 PLQTSLIDMYAKCGAIKEALIVFHGVEK--H-QSDVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLS-  306 (440)
Q Consensus       231 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~-  306 (440)
                      .........+...+++..+...+.....  . ......+......+...+++..+...+.........+ ......... 
T Consensus        60 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~  138 (291)
T COG0457          60 GLLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALELLEKALALDPDP-DLAEALLALG  138 (291)
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHHHHHHHHHcCCCCc-chHHHHHHHH
Confidence            4444455555555555555555555442  1 2233344444444445555555555555554432221 111111111 


Q ss_pred             HHHcCCChHHHHHHHHHHhhcCC--CCCcchHHHHHHHHHhcCCHHHHHHHHhcC-CCCcc--HhHHHHHHHHHHhcCCh
Q 039362          307 ACAHGGLVMEAWYFFKSLGKRGM--VPKSEHYACMVDALSRAGQVTEAYEFICQM-PLEPT--ASMLGSLLTGCMNHGKL  381 (440)
Q Consensus       307 ~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p~--~~~~~~l~~~~~~~g~~  381 (440)
                      .+...|+++.+...+.+......  ......+......+...++.+.+...+.+. ...++  ...+..+...+...+++
T Consensus       139 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  218 (291)
T COG0457         139 ALYELGDYEEALELYEKALELDPELNELAEALLALGALLEALGRYEEALELLEKALKLNPDDDAEALLNLGLLYLKLGKY  218 (291)
T ss_pred             HHHHcCCHHHHHHHHHHHHhcCCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHHhhCcccchHHHHHhhHHHHHcccH
Confidence            34455555555555555533110  011122222233344455555555555554 22222  34444455555555555


Q ss_pred             hHHHHHHHHHHhcCCCCCchHHHHHHHHHhccChHHHHHHHHHHHh
Q 039362          382 DLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEARTTREAMET  427 (440)
Q Consensus       382 ~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  427 (440)
                      +.|...+.......|.....+......+...|..+++...+++...
T Consensus       219 ~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  264 (291)
T COG0457         219 EEALEYYEKALELDPDNAEALYNLALLLLELGRYEEALEALEKALE  264 (291)
T ss_pred             HHHHHHHHHHHhhCcccHHHHhhHHHHHHHcCCHHHHHHHHHHHHH
Confidence            5555555555555554333444444444444445555555554443

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=96.42  E-value=0.21  Score=46.17  Aligned_cols=116  Identities=16%  Similarity=-0.007  Sum_probs=79.2

Q ss_pred             CCChHHHHHHHHHHhhcCCCCCcchHH-HHHHHHHhcCCHHHHHHHHhcCC-C-----CccHhHHHHHHHHHHhcCChhH
Q 039362          311 GGLVMEAWYFFKSLGKRGMVPKSEHYA-CMVDALSRAGQVTEAYEFICQMP-L-----EPTASMLGSLLTGCMNHGKLDL  383 (440)
Q Consensus       311 ~~~~~~a~~~~~~~~~~~~~~~~~~~~-~l~~~~~~~~~~~~a~~~~~~~~-~-----~p~~~~~~~l~~~~~~~g~~~~  383 (440)
                      ..+.+.|.+++..+.+.  -|+...|. .-.+.+...|++++|++.|++.. .     +.....+-.++..+.-.+++++
T Consensus       246 ~~~~~~a~~lL~~~~~~--yP~s~lfl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~  323 (468)
T PF10300_consen  246 DVPLEEAEELLEEMLKR--YPNSALFLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEE  323 (468)
T ss_pred             CCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHH
Confidence            45667788888888774  35555543 33456667888888888888651 1     1123445566777788889999


Q ss_pred             HHHHHHHHHhcCCCCCchHH-HHHHHHHhccCh-------HHHHHHHHHHHhc
Q 039362          384 AEIVGKKLVELQPDHDGRYV-GLSNVYAIFKRW-------DEARTTREAMETR  428 (440)
Q Consensus       384 a~~~~~~~~~~~~~~~~~~~-~l~~~~~~~g~~-------~~A~~~~~~~~~~  428 (440)
                      |...|.++.+.+.-+..+|. ..+.++...|+.       ++|.+++.++...
T Consensus       324 A~~~f~~L~~~s~WSka~Y~Y~~a~c~~~l~~~~~~~~~~~~a~~l~~~vp~l  376 (468)
T PF10300_consen  324 AAEYFLRLLKESKWSKAFYAYLAAACLLMLGREEEAKEHKKEAEELFRKVPKL  376 (468)
T ss_pred             HHHHHHHHHhccccHHHHHHHHHHHHHHhhccchhhhhhHHHHHHHHHHHHHH
Confidence            99999999887755555544 344555667888       8888888877654

In humans this protein is expressed in primary breast carcinomas but not in normal breast tissue, and has a putative eukaryotic RNP-1 RNA binding region and a candidate anchoring transmembrane domain. The human protein is coordinately regulated with oestrogen receptor, but is not necessarily oestradiol-responsive []. Members of this family carry a tetratricopeptide repeat (IPR013105 from INTERPRO) at their C terminus.

>PF04053 Coatomer_WDAD: Coatomer WD associated region ; InterPro: IPR006692 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=96.40  E-value=0.2  Score=45.57  Aligned_cols=166  Identities=17%  Similarity=0.160  Sum_probs=101.2

Q ss_pred             HHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHH
Q 039362          168 DGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIK  247 (440)
Q Consensus       168 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  247 (440)
                      ....-.++++++.+..+.-.-.. ..+......++.-+.+.|.++.|.++..         |+.   .-.+...+.|+++
T Consensus       269 k~av~~~d~~~v~~~i~~~~ll~-~i~~~~~~~i~~fL~~~G~~e~AL~~~~---------D~~---~rFeLAl~lg~L~  335 (443)
T PF04053_consen  269 KTAVLRGDFEEVLRMIAASNLLP-NIPKDQGQSIARFLEKKGYPELALQFVT---------DPD---HRFELALQLGNLD  335 (443)
T ss_dssp             HHHHHTT-HHH-----HHHHTGG-G--HHHHHHHHHHHHHTT-HHHHHHHSS----------HH---HHHHHHHHCT-HH
T ss_pred             HHHHHcCChhhhhhhhhhhhhcc-cCChhHHHHHHHHHHHCCCHHHHHhhcC---------ChH---HHhHHHHhcCCHH
Confidence            34455778888776665211000 1124456677777788888888877633         221   1234456778888


Q ss_pred             HHHHHHhhhhhcCCchhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHhhc
Q 039362          248 EALIVFHGVEKHQSDVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKR  327 (440)
Q Consensus       248 ~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  327 (440)
                      .|.++.+...    +...|..|.....+.|+++-|++.|++..+         |..|+-.|.-.|+.+.-.++.+.....
T Consensus       336 ~A~~~a~~~~----~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~d---------~~~L~lLy~~~g~~~~L~kl~~~a~~~  402 (443)
T PF04053_consen  336 IALEIAKELD----DPEKWKQLGDEALRQGNIELAEECYQKAKD---------FSGLLLLYSSTGDREKLSKLAKIAEER  402 (443)
T ss_dssp             HHHHHCCCCS----THHHHHHHHHHHHHTTBHHHHHHHHHHCT----------HHHHHHHHHHCT-HHHHHHHHHHHHHT
T ss_pred             HHHHHHHhcC----cHHHHHHHHHHHHHcCCHHHHHHHHHhhcC---------ccccHHHHHHhCCHHHHHHHHHHHHHc
Confidence            8888776544    566889999999999999999888886442         455555667778887777777766665


Q ss_pred             CCCCCcchHHHHHHHHHhcCCHHHHHHHHhcCCCCccH
Q 039362          328 GMVPKSEHYACMVDALSRAGQVTEAYEFICQMPLEPTA  365 (440)
Q Consensus       328 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~p~~  365 (440)
                      |      -++....++.-.|+.++..+++.+.+..|..
T Consensus       403 ~------~~n~af~~~~~lgd~~~cv~lL~~~~~~~~A  434 (443)
T PF04053_consen  403 G------DINIAFQAALLLGDVEECVDLLIETGRLPEA  434 (443)
T ss_dssp             T-------HHHHHHHHHHHT-HHHHHHHHHHTT-HHHH
T ss_pred             c------CHHHHHHHHHHcCCHHHHHHHHHHcCCchHH
Confidence            4      2556666777788888888888877654443

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.

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.39  E-value=0.24  Score=41.99  Aligned_cols=148  Identities=11%  Similarity=-0.048  Sum_probs=89.2

Q ss_pred             hcCCHHHHHHHHhhhhhcCC-chhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHH----HHHHHHHcCCChHH
Q 039362          242 KCGAIKEALIVFHGVEKHQS-DVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFL----GLLSACAHGGLVME  316 (440)
Q Consensus       242 ~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~----~l~~~~~~~~~~~~  316 (440)
                      -.|+..+|-..++++.+..| |...+..--.++...|+.+.-...+++.... ..|+...|.    .+.-++...|-+++
T Consensus       115 ~~g~~h~a~~~wdklL~d~PtDlla~kfsh~a~fy~G~~~~~k~ai~kIip~-wn~dlp~~sYv~GmyaFgL~E~g~y~d  193 (491)
T KOG2610|consen  115 GRGKHHEAAIEWDKLLDDYPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPK-WNADLPCYSYVHGMYAFGLEECGIYDD  193 (491)
T ss_pred             ccccccHHHHHHHHHHHhCchhhhhhhhhhhHHHhccchhhhhhHHHHhccc-cCCCCcHHHHHHHHHHhhHHHhccchh
Confidence            45666666666777666545 5666666667777777777777777776643 133332222    22333456777788


Q ss_pred             HHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcCCCCc------cHhHHHHHHHHHHhcCChhHHHHHHHH
Q 039362          317 AWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQMPLEP------TASMLGSLLTGCMNHGKLDLAEIVGKK  390 (440)
Q Consensus       317 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~p------~~~~~~~l~~~~~~~g~~~~a~~~~~~  390 (440)
                      |++.-++..+.+ +.|.-...++...+.-.|++.++.++..+-.-..      -...|-...-.+...+.++.|+++|++
T Consensus       194 AEk~A~ralqiN-~~D~Wa~Ha~aHVlem~~r~Keg~eFM~~ted~Wr~s~mlasHNyWH~Al~~iE~aeye~aleIyD~  272 (491)
T KOG2610|consen  194 AEKQADRALQIN-RFDCWASHAKAHVLEMNGRHKEGKEFMYKTEDDWRQSWMLASHNYWHTALFHIEGAEYEKALEIYDR  272 (491)
T ss_pred             HHHHHHhhccCC-CcchHHHHHHHHHHHhcchhhhHHHHHHhcccchhhhhHHHhhhhHHHHHhhhcccchhHHHHHHHH
Confidence            877777776643 2244455566666777778888877777652111      112233444445566777888877765


Q ss_pred             H
Q 039362          391 L  391 (440)
Q Consensus       391 ~  391 (440)
                      =
T Consensus       273 e  273 (491)
T KOG2610|consen  273 E  273 (491)
T ss_pred             H
Confidence            3

>PRK11906 transcriptional regulator; Provisional

Probab=96.39  E-value=0.054  Score=48.23  Aligned_cols=118  Identities=14%  Similarity=0.087  Sum_probs=84.2

Q ss_pred             ChHHHHHHHHHHhhc-CCCCC-cchHHHHHHHHHh---------cCCHHHHHHHHhcC-CCCc-cHhHHHHHHHHHHhcC
Q 039362          313 LVMEAWYFFKSLGKR-GMVPK-SEHYACMVDALSR---------AGQVTEAYEFICQM-PLEP-TASMLGSLLTGCMNHG  379 (440)
Q Consensus       313 ~~~~a~~~~~~~~~~-~~~~~-~~~~~~l~~~~~~---------~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~g  379 (440)
                      ..+.|..+|.+.... ...|+ ...|..+..++..         .....+|.++.++. .+.| |+.....+..+....|
T Consensus       273 ~~~~Al~lf~ra~~~~~ldp~~a~a~~~lA~~h~~~~~~g~~~~~~~~~~a~~~A~rAveld~~Da~a~~~~g~~~~~~~  352 (458)
T PRK11906        273 SIYRAMTIFDRLQNKSDIQTLKTECYCLLAECHMSLALHGKSELELAAQKALELLDYVSDITTVDGKILAIMGLITGLSG  352 (458)
T ss_pred             HHHHHHHHHHHHhhcccCCcccHHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHhhc
Confidence            345666777777622 23343 2333333333221         22344566666665 4444 5666777777778888


Q ss_pred             ChhHHHHHHHHHHhcCCCCCchHHHHHHHHHhccChHHHHHHHHHHHhcCC
Q 039362          380 KLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEARTTREAMETRGV  430 (440)
Q Consensus       380 ~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  430 (440)
                      +++.|...|+++..++|+...+|...+..+.-.|+.++|.+.+++..+..+
T Consensus       353 ~~~~a~~~f~rA~~L~Pn~A~~~~~~~~~~~~~G~~~~a~~~i~~alrLsP  403 (458)
T PRK11906        353 QAKVSHILFEQAKIHSTDIASLYYYRALVHFHNEKIEEARICIDKSLQLEP  403 (458)
T ss_pred             chhhHHHHHHHHhhcCCccHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCc
Confidence            899999999999999999999999999999999999999999999777654

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=96.34  E-value=0.51  Score=39.47  Aligned_cols=121  Identities=13%  Similarity=0.120  Sum_probs=54.1

Q ss_pred             HHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHH
Q 039362          169 GYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKE  248 (440)
Q Consensus       169 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  248 (440)
                      .....|++.+|...|....... +-+......++.++...|+.+.|..++..+....-.........-+..+.+.....+
T Consensus       143 ~~~~~e~~~~a~~~~~~al~~~-~~~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~~~~~~~~~l~a~i~ll~qaa~~~~  221 (304)
T COG3118         143 ELIEAEDFGEAAPLLKQALQAA-PENSEAKLLLAECLLAAGDVEAAQAILAALPLQAQDKAAHGLQAQIELLEQAAATPE  221 (304)
T ss_pred             hhhhccchhhHHHHHHHHHHhC-cccchHHHHHHHHHHHcCChHHHHHHHHhCcccchhhHHHHHHHHHHHHHHHhcCCC
Confidence            3445555666666555554442 222334444555555666666666665554332211111111222333333333333


Q ss_pred             HHHHHhhhhhcCC-chhhHHHHHHHHHhcCChHHHHHHHHHHHH
Q 039362          249 ALIVFHGVEKHQS-DVLIWNAMIGGLAMHGFVKESLELFTEMQI  291 (440)
Q Consensus       249 A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~  291 (440)
                      ...+-.+... .| |...--.+...+...|+.+.|.+.+-.+..
T Consensus       222 ~~~l~~~~aa-dPdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~  264 (304)
T COG3118         222 IQDLQRRLAA-DPDDVEAALALADQLHLVGRNEAALEHLLALLR  264 (304)
T ss_pred             HHHHHHHHHh-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            3333333222 23 444444555555556666666555554443

>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=96.31  E-value=0.048  Score=39.78  Aligned_cols=48  Identities=8%  Similarity=0.255  Sum_probs=25.0

Q ss_pred             CCccHhhHHHHHHHHHcCCChHHHHHHHHHHhhc-CCCCCcchHHHHHH
Q 039362          294 ITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKR-GMVPKSEHYACMVD  341 (440)
Q Consensus       294 ~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~  341 (440)
                      ..|+..++..++.+|+..+++..|.++++...+. +++.+..+|..|++
T Consensus        48 l~Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~   96 (126)
T PF12921_consen   48 LYPTSRLLIAIVHSFGYNGDIFSALKLVDFFSRKYPIPIPKEFWRRLLE   96 (126)
T ss_pred             CCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Confidence            3455555555555555555555555555555554 44444444444444

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>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=96.27  E-value=0.27  Score=35.53  Aligned_cols=137  Identities=17%  Similarity=0.147  Sum_probs=71.6

Q ss_pred             HhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhh---HHHHHHHHHhcCCHH
Q 039362          171 VKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPL---QTSLIDMYAKCGAIK  247 (440)
Q Consensus       171 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~---~~~l~~~~~~~g~~~  247 (440)
                      .-.|..++..++..+...+.   +..-++.++--....-+-+-..+.++.+-+   ..|...   ...++.+|...|   
T Consensus        13 ildG~V~qGveii~k~v~Ss---ni~E~NWvICNiiDaa~C~yvv~~LdsIGk---iFDis~C~NlKrVi~C~~~~n---   83 (161)
T PF09205_consen   13 ILDGDVKQGVEIIEKTVNSS---NIKEYNWVICNIIDAADCDYVVETLDSIGK---IFDISKCGNLKRVIECYAKRN---   83 (161)
T ss_dssp             HHTT-HHHHHHHHHHHHHHS----HHHHTHHHHHHHHH--HHHHHHHHHHHGG---GS-GGG-S-THHHHHHHHHTT---
T ss_pred             HHhchHHHHHHHHHHHcCcC---CccccceeeeecchhhchhHHHHHHHHHhh---hcCchhhcchHHHHHHHHHhc---
Confidence            34566777777777665432   333444444333333333333444443322   222222   133344444332   


Q ss_pred             HHHHHHhhhhhcCCchhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHhhc
Q 039362          248 EALIVFHGVEKHQSDVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKR  327 (440)
Q Consensus       248 ~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  327 (440)
                                   .+.......+..+...|+-+.-.+++.++.+.+ .+++.....+..+|.+.|+..++.+++.++.+.
T Consensus        84 -------------~~se~vD~ALd~lv~~~kkDqLdki~~~l~kn~-~~~p~~L~kia~Ay~klg~~r~~~ell~~ACek  149 (161)
T PF09205_consen   84 -------------KLSEYVDLALDILVKQGKKDQLDKIYNELKKNE-EINPEFLVKIANAYKKLGNTREANELLKEACEK  149 (161)
T ss_dssp             ----------------HHHHHHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHT
T ss_pred             -------------chHHHHHHHHHHHHHhccHHHHHHHHHHHhhcc-CCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHh
Confidence                         233444555667777888888888888776543 677777778888888888888888888888887


Q ss_pred             CCC
Q 039362          328 GMV  330 (440)
Q Consensus       328 ~~~  330 (440)
                      |++
T Consensus       150 G~k  152 (161)
T PF09205_consen  150 GLK  152 (161)
T ss_dssp             T-H
T ss_pred             chH
Confidence            753

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=96.26  E-value=0.013  Score=31.11  Aligned_cols=32  Identities=22%  Similarity=0.142  Sum_probs=21.5

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHHhcCCCC
Q 039362          367 MLGSLLTGCMNHGKLDLAEIVGKKLVELQPDH  398 (440)
Q Consensus       367 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~  398 (440)
                      .+..+...+...|++++|++.++++++++|.+
T Consensus         3 ~~~~lg~~~~~~~~~~~A~~~~~~al~l~p~~   34 (34)
T PF07719_consen    3 AWYYLGQAYYQLGNYEEAIEYFEKALELDPNN   34 (34)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHSTTS
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHHHCcCC
Confidence            45566667777777777777777777777654

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 ....

>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=96.26  E-value=0.078  Score=38.69  Aligned_cols=98  Identities=17%  Similarity=0.170  Sum_probs=63.9

Q ss_pred             cHhhHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcC-CCCccHhHHHHHHHHH
Q 039362          297 DEITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQM-PLEPTASMLGSLLTGC  375 (440)
Q Consensus       297 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p~~~~~~~l~~~~  375 (440)
                      |..++..++.++++.|+.+....+++..-  |+.++...         ..+.       +..- +..|+..++.+++.+|
T Consensus         1 de~~~~~ii~al~r~g~~~~i~~~i~~~W--gI~~~~~~---------~~~~-------~~~~spl~Pt~~lL~AIv~sf   62 (126)
T PF12921_consen    1 DEELLCNIIYALGRSGQLDSIKSYIKSVW--GIDVNGKK---------KEGD-------YPPSSPLYPTSRLLIAIVHSF   62 (126)
T ss_pred             ChHHHHHHHHHHhhcCCHHHHHHHHHHhc--CCCCCCcc---------ccCc-------cCCCCCCCCCHHHHHHHHHHH
Confidence            45677778888888888877777765443  22222110         0000       2222 5678888888999999


Q ss_pred             HhcCChhHHHHHHHHHHhcCC--CCCchHHHHHHHHHhc
Q 039362          376 MNHGKLDLAEIVGKKLVELQP--DHDGRYVGLSNVYAIF  412 (440)
Q Consensus       376 ~~~g~~~~a~~~~~~~~~~~~--~~~~~~~~l~~~~~~~  412 (440)
                      +..|++..|.++.+...+..|  -+..+|..|+.-....
T Consensus        63 ~~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~W~~v~  101 (126)
T PF12921_consen   63 GYNGDIFSALKLVDFFSRKYPIPIPKEFWRRLLEWAYVL  101 (126)
T ss_pred             HhcccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHh
Confidence            889999999999988888763  3344677766655443

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=96.21  E-value=0.051  Score=44.64  Aligned_cols=109  Identities=16%  Similarity=0.116  Sum_probs=83.3

Q ss_pred             HHHhhhcC--CCChHHHHHHHHHHHc-----cCChhhHHHHHHHHHHcCCCCCcchHHHHHHHhhch-------------
Q 039362           17 CKVLSHLS--NPRIFYWNTVIRGYSK-----SKNPNKSISLFVKMLRAGVSPDHLTYPFLAKASGRL-------------   76 (440)
Q Consensus        17 ~~~~~~~~--~~~~~~~~~l~~~~~~-----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-------------   76 (440)
                      +..|+.++  +.|-.+|...+..+..     .+..+-....++.|.+-|+..|..+|+.|++.+-+-             
T Consensus        54 e~~F~aa~~~~RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfiP~nvfQ~~F~  133 (406)
T KOG3941|consen   54 EKQFEAAEPEKRDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFIPQNVFQKVFL  133 (406)
T ss_pred             hhhhhccCcccccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccccHHHHHHHHh
Confidence            44556555  5677788888877654     466777778888999999999999999999986543             


Q ss_pred             ---hcHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhcCCH-HHHHHHhhCCC
Q 039362           77 ---AKRELAVAVHAQIAKTGYESDLFISNSLIHMYGSCGDI-VYAREVFDGMP  125 (440)
Q Consensus        77 ---~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~-~~a~~~~~~~~  125 (440)
                         .+-+-+++++++|...|+.||-.+-..|+.++.+.+.. .+..++.-.|+
T Consensus       134 HYP~QQ~C~I~vLeqME~hGVmPdkE~e~~lvn~FGr~~~p~~K~~Rm~yWmP  186 (406)
T KOG3941|consen  134 HYPQQQNCAIKVLEQMEWHGVMPDKEIEDILVNAFGRWNFPTKKVKRMLYWMP  186 (406)
T ss_pred             hCchhhhHHHHHHHHHHHcCCCCchHHHHHHHHHhccccccHHHHHHHHHhhh
Confidence               22355889999999999999999999999999988753 33444444443

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=96.17  E-value=0.011  Score=31.49  Aligned_cols=32  Identities=22%  Similarity=0.224  Sum_probs=22.9

Q ss_pred             hHHHHHHHHHHhcCChhHHHHHHHHHHhcCCC
Q 039362          366 SMLGSLLTGCMNHGKLDLAEIVGKKLVELQPD  397 (440)
Q Consensus       366 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  397 (440)
                      .+|..++..+...|++++|+..|+++++++|.
T Consensus         2 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~   33 (34)
T PF00515_consen    2 EAYYNLGNAYFQLGDYEEALEYYQRALELDPD   33 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHHHCcC
Confidence            45667777777777777777777777777765

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 ....

>PF07035 Mic1: Colon cancer-associated protein Mic1-like; InterPro: IPR009755 This entry represents the C terminus (approximately 160 residues) of a number of proteins that resemble colon cancer-associated protein Mic1

Probab=96.12  E-value=0.32  Score=37.28  Aligned_cols=57  Identities=19%  Similarity=0.202  Sum_probs=27.7

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 039362          163 WSALIDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMID  223 (440)
Q Consensus       163 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  223 (440)
                      +..++..+...|++-+|+++.+......    ......++.+..+.+|...-..+++-..+
T Consensus        92 ~~~iievLL~~g~vl~ALr~ar~~~~~~----~~~~~~fLeAA~~~~D~~lf~~V~~ff~~  148 (167)
T PF07035_consen   92 YEEIIEVLLSKGQVLEALRYARQYHKVD----SVPARKFLEAAANSNDDQLFYAVFRFFEE  148 (167)
T ss_pred             HHHHHHHHHhCCCHHHHHHHHHHcCCcc----cCCHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            3344555666666666666655542211    11223344555555555555555554444

>KOG1586 consensus Protein required for fusion of vesicles in vesicular transport, alpha-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.11  E-value=0.56  Score=37.74  Aligned_cols=23  Identities=9%  Similarity=-0.013  Sum_probs=14.2

Q ss_pred             HhcCChhHHHHHHHHHHhcCCCC
Q 039362          376 MNHGKLDLAEIVGKKLVELQPDH  398 (440)
Q Consensus       376 ~~~g~~~~a~~~~~~~~~~~~~~  398 (440)
                      +..+++.+|+.+|+++....-++
T Consensus       165 a~leqY~~Ai~iyeqva~~s~~n  187 (288)
T KOG1586|consen  165 AQLEQYSKAIDIYEQVARSSLDN  187 (288)
T ss_pred             HHHHHHHHHHHHHHHHHHHhccc
Confidence            35666777777777766654433

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=96.09  E-value=0.2  Score=37.04  Aligned_cols=117  Identities=15%  Similarity=0.021  Sum_probs=71.8

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHcCC--CccHhhHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhc
Q 039362          269 MIGGLAMHGFVKESLELFTEMQIVGI--TPDEITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRA  346 (440)
Q Consensus       269 l~~~~~~~~~~~~a~~~~~~m~~~~~--~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  346 (440)
                      -.....+.|++++|.+.|+.+...-.  +-....-..++.++.+.+++++|...+++.++........-|...+.+++..
T Consensus        16 ~a~~~l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~vdYa~Y~~gL~~~   95 (142)
T PF13512_consen   16 EAQEALQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPNVDYAYYMRGLSYY   95 (142)
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCCccHHHHHHHHHHH
Confidence            34455677888888888888876521  1123456677788888888888888888888874333334455555555544


Q ss_pred             CCHHHHHHHHhcCCCCccHhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCCc
Q 039362          347 GQVTEAYEFICQMPLEPTASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDG  400 (440)
Q Consensus       347 ~~~~~a~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~  400 (440)
                      ...+..+.-+-  +.+-             ..+....|..-|+++++..|++..
T Consensus        96 ~~~~~~~~~~~--~~dr-------------D~~~~~~A~~~f~~lv~~yP~S~y  134 (142)
T PF13512_consen   96 EQDEGSLQSFF--RSDR-------------DPTPARQAFRDFEQLVRRYPNSEY  134 (142)
T ss_pred             HHhhhHHhhhc--cccc-------------CcHHHHHHHHHHHHHHHHCcCChh
Confidence            33332222111  1111             122345788888888888888753

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=96.00  E-value=0.77  Score=38.46  Aligned_cols=140  Identities=15%  Similarity=0.128  Sum_probs=90.2

Q ss_pred             HHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCCch--hhHHHHHHHHHhcCChH
Q 039362          203 CACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQSDV--LIWNAMIGGLAMHGFVK  280 (440)
Q Consensus       203 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~--~~~~~l~~~~~~~~~~~  280 (440)
                      ......|++.+|...|+...... +.+......++.+|...|+.+.|..++..+.....+.  .....-|..+.+.....
T Consensus       142 ~~~~~~e~~~~a~~~~~~al~~~-~~~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~~~~~~~~~l~a~i~ll~qaa~~~  220 (304)
T COG3118         142 KELIEAEDFGEAAPLLKQALQAA-PENSEAKLLLAECLLAAGDVEAAQAILAALPLQAQDKAAHGLQAQIELLEQAAATP  220 (304)
T ss_pred             hhhhhccchhhHHHHHHHHHHhC-cccchHHHHHHHHHHHcCChHHHHHHHHhCcccchhhHHHHHHHHHHHHHHHhcCC
Confidence            34567899999999999988876 5556777889999999999999999999987543322  22223344444444444


Q ss_pred             HHHHHHHHHHHcCCCc-cHhhHHHHHHHHHcCCChHHHHHHHHHHhhc--CCCCCcchHHHHHHHHHhcC
Q 039362          281 ESLELFTEMQIVGITP-DEITFLGLLSACAHGGLVMEAWYFFKSLGKR--GMVPKSEHYACMVDALSRAG  347 (440)
Q Consensus       281 ~a~~~~~~m~~~~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~  347 (440)
                      +...+-.+.-.   .| |...-..+...+...|+.+.|.+.+-.+.+.  |.. |...-..++..+.-.|
T Consensus       221 ~~~~l~~~~aa---dPdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~~d~~~~-d~~~Rk~lle~f~~~g  286 (304)
T COG3118         221 EIQDLQRRLAA---DPDDVEAALALADQLHLVGRNEAALEHLLALLRRDRGFE-DGEARKTLLELFEAFG  286 (304)
T ss_pred             CHHHHHHHHHh---CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccccc-CcHHHHHHHHHHHhcC
Confidence            44444444333   34 5555566677777788888888777666665  322 3444444555444444

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=95.97  E-value=0.5  Score=36.02  Aligned_cols=52  Identities=13%  Similarity=0.011  Sum_probs=21.8

Q ss_pred             hcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHhh
Q 039362          275 MHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGK  326 (440)
Q Consensus       275 ~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  326 (440)
                      ..|.++......+.+...+-+-....-..|.-+-.+.|++..|...|..+..
T Consensus       144 D~gsy~dV~srvepLa~d~n~mR~sArEALglAa~kagd~a~A~~~F~qia~  195 (221)
T COG4649         144 DNGSYDDVSSRVEPLAGDGNPMRHSAREALGLAAYKAGDFAKAKSWFVQIAN  195 (221)
T ss_pred             ccccHHHHHHHhhhccCCCChhHHHHHHHHhHHHHhccchHHHHHHHHHHHc
Confidence            3444444444444443332222222223333334445555555555555444

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=95.92  E-value=0.49  Score=35.50  Aligned_cols=125  Identities=9%  Similarity=0.011  Sum_probs=64.4

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhc
Q 039362          267 NAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRA  346 (440)
Q Consensus       267 ~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  346 (440)
                      ..++..+...+........++.+...+ ..+....+.++..|++.+ ..+....++.      ..+......+++.|.+.
T Consensus        11 ~~vv~~~~~~~~~~~l~~yLe~~~~~~-~~~~~~~~~li~ly~~~~-~~~ll~~l~~------~~~~yd~~~~~~~c~~~   82 (140)
T smart00299       11 SEVVELFEKRNLLEELIPYLESALKLN-SENPALQTKLIELYAKYD-PQKEIERLDN------KSNHYDIEKVGKLCEKA   82 (140)
T ss_pred             HHHHHHHHhCCcHHHHHHHHHHHHccC-ccchhHHHHHHHHHHHHC-HHHHHHHHHh------ccccCCHHHHHHHHHHc
Confidence            445555555566666666666666554 344555666666665542 2333333331      12333344466666666


Q ss_pred             CCHHHHHHHHhcCCCCccHhHHHHHHHHHHhc-CChhHHHHHHHHHHhcCCCCCchHHHHHHHHH
Q 039362          347 GQVTEAYEFICQMPLEPTASMLGSLLTGCMNH-GKLDLAEIVGKKLVELQPDHDGRYVGLSNVYA  410 (440)
Q Consensus       347 ~~~~~a~~~~~~~~~~p~~~~~~~l~~~~~~~-g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~  410 (440)
                      +.++++.-++.+++...+      .+..+... ++++.|.+++.+     +.++..|..++..+.
T Consensus        83 ~l~~~~~~l~~k~~~~~~------Al~~~l~~~~d~~~a~~~~~~-----~~~~~lw~~~~~~~l  136 (140)
T smart00299       83 KLYEEAVELYKKDGNFKD------AIVTLIEHLGNYEKAIEYFVK-----QNNPELWAEVLKALL  136 (140)
T ss_pred             CcHHHHHHHHHhhcCHHH------HHHHHHHcccCHHHHHHHHHh-----CCCHHHHHHHHHHHH
Confidence            666677776666643211      11222222 666666666664     224445555554443

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=95.89  E-value=1.2  Score=39.69  Aligned_cols=149  Identities=13%  Similarity=-0.010  Sum_probs=80.3

Q ss_pred             chhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCc---cHhhHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCC--cchH
Q 039362          262 DVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITP---DEITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPK--SEHY  336 (440)
Q Consensus       262 ~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~  336 (440)
                      ...+|..++..+.+.|.++.|...+..+...+..+   .+.....-.......|+..+|+..++......+..+  ....
T Consensus       145 ~~~~~l~~a~~aRk~g~~~~A~~~l~~~~~~~~~~~~~~~~v~~e~akllw~~g~~~~Ai~~L~~~~~~~~~~~~~~~~~  224 (352)
T PF02259_consen  145 LAETWLKFAKLARKAGNFQLALSALNRLFQLNPSSESLLPRVFLEYAKLLWAQGEQEEAIQKLRELLKCRLSKNIDSISN  224 (352)
T ss_pred             HHHHHHHHHHHHHHCCCcHHHHHHHHHHhccCCcccCCCcchHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhccccccH
Confidence            45567777778888888888888888777643111   223333344555667888888888887776321111  1111


Q ss_pred             HHHHHHHHhcCCHHHHHHH-HhcCCCCccHhHHHHHHHHHHhc------CChhHHHHHHHHHHhcCCCCCchHHHHHHHH
Q 039362          337 ACMVDALSRAGQVTEAYEF-ICQMPLEPTASMLGSLLTGCMNH------GKLDLAEIVGKKLVELQPDHDGRYVGLSNVY  409 (440)
Q Consensus       337 ~~l~~~~~~~~~~~~a~~~-~~~~~~~p~~~~~~~l~~~~~~~------g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~  409 (440)
                      ..+......  ..+..... ........-...+..+..-+...      ++.+++...|.++.+..|.....|..++..+
T Consensus       225 ~~~~~~~~~--~~~~~~~~~~~~~~~~~~a~~~l~~a~w~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~k~~~~~a~~~  302 (352)
T PF02259_consen  225 AELKSGLLE--SLEVISSTNLDKESKELKAKAFLLLAKWLDELYSKLSSESSDEILKYYKEATKLDPSWEKAWHSWALFN  302 (352)
T ss_pred             HHHhhcccc--ccccccccchhhhhHHHHHHHHHHHHHHHHhhccccccccHHHHHHHHHHHHHhChhHHHHHHHHHHHH
Confidence            111111000  00000000 00000001112333333333344      7888899999999999988888888777776


Q ss_pred             Hhc
Q 039362          410 AIF  412 (440)
Q Consensus       410 ~~~  412 (440)
                      .+.
T Consensus       303 ~~~  305 (352)
T PF02259_consen  303 DKL  305 (352)
T ss_pred             HHH
Confidence            553

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=95.88  E-value=0.077  Score=43.64  Aligned_cols=99  Identities=19%  Similarity=0.196  Sum_probs=70.2

Q ss_pred             HHHHhhhhhcCCchhhHHHHHHHHHh-----cCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcC-------------
Q 039362          250 LIVFHGVEKHQSDVLIWNAMIGGLAM-----HGFVKESLELFTEMQIVGITPDEITFLGLLSACAHG-------------  311 (440)
Q Consensus       250 ~~~~~~~~~~~~~~~~~~~l~~~~~~-----~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~-------------  311 (440)
                      ...|..+.....|-.+|-..+..+..     .+.++-....++.|.+.|+.-|..+|..|+..+-+.             
T Consensus        54 e~~F~aa~~~~RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfiP~nvfQ~~F~  133 (406)
T KOG3941|consen   54 EKQFEAAEPEKRDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFIPQNVFQKVFL  133 (406)
T ss_pred             hhhhhccCcccccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccccHHHHHHHHh
Confidence            33444444334456666666666643     355666667778888889998999999888876543             


Q ss_pred             ---CChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCC
Q 039362          312 ---GLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQ  348 (440)
Q Consensus       312 ---~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  348 (440)
                         .+-+-++.++++|...|+.||..+-..|+.++.+.+-
T Consensus       134 HYP~QQ~C~I~vLeqME~hGVmPdkE~e~~lvn~FGr~~~  173 (406)
T KOG3941|consen  134 HYPQQQNCAIKVLEQMEWHGVMPDKEIEDILVNAFGRWNF  173 (406)
T ss_pred             hCchhhhHHHHHHHHHHHcCCCCchHHHHHHHHHhccccc
Confidence               2234577888888888988998888888888887765

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=95.87  E-value=1.4  Score=40.87  Aligned_cols=161  Identities=17%  Similarity=0.073  Sum_probs=96.8

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhcC-CCCCH-----HHHHHHHHHHHh----cCChHHHHHHHHHHHHcCCCCchhh
Q 039362          163 WSALIDGYVKCGDYKEALVIFEEMRDVG-SKANE-----VTLVSVLCACAH----LGALDQGRMMLRYMIDKGLSLTLPL  232 (440)
Q Consensus       163 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~-----~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~  232 (440)
                      ...++....=.|+-+.+++.+.+..+.+ +.-..     -.|..++..++.    ..+.+.|.++++.+.+.  -|+...
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            3445555566788888888887765533 22111     123333433332    34667788888888776  344444


Q ss_pred             H-HHHHHHHHhcCCHHHHHHHHhhhhhcCC-----chhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHH
Q 039362          233 Q-TSLIDMYAKCGAIKEALIVFHGVEKHQS-----DVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLS  306 (440)
Q Consensus       233 ~-~~l~~~~~~~g~~~~A~~~~~~~~~~~~-----~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~  306 (440)
                      | -.-...+...|++++|++.|++....+.     ....+--+.-.+.-.++|++|.+.|..+.+.. .-+..+|..+..
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            4 3345667778888888888887553211     22334445556677788888888888888753 223344444433


Q ss_pred             HH-HcCCCh-------HHHHHHHHHHhh
Q 039362          307 AC-AHGGLV-------MEAWYFFKSLGK  326 (440)
Q Consensus       307 ~~-~~~~~~-------~~a~~~~~~~~~  326 (440)
                      +| ...++.       ++|.++|.++..
T Consensus       348 ~c~~~l~~~~~~~~~~~~a~~l~~~vp~  375 (468)
T PF10300_consen  348 ACLLMLGREEEAKEHKKEAEELFRKVPK  375 (468)
T ss_pred             HHHHhhccchhhhhhHHHHHHHHHHHHH
Confidence            33 345555       777777776644

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.

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=95.80  E-value=0.87  Score=37.40  Aligned_cols=79  Identities=13%  Similarity=-0.071  Sum_probs=53.0

Q ss_pred             HHHHHHHHHHHccCChhhHHHHHHHHHHcCCCC---CcchHHHHHHHhhchhcHHHHHHHHHHHHHcCCCCcHHHHHHHH
Q 039362           29 FYWNTVIRGYSKSKNPNKSISLFVKMLRAGVSP---DHLTYPFLAKASGRLAKRELAVAVHAQIAKTGYESDLFISNSLI  105 (440)
Q Consensus        29 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  105 (440)
                      ..|+.- ..-.+.|++++|.+.|+.+.... +-   ...+...++.++-+.++++.|+..+++....-+.....-|..-|
T Consensus        36 ~LY~~g-~~~L~~gn~~~A~~~fe~l~~~~-p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~lyP~~~n~dY~~Yl  113 (254)
T COG4105          36 ELYNEG-LTELQKGNYEEAIKYFEALDSRH-PFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRLYPTHPNADYAYYL  113 (254)
T ss_pred             HHHHHH-HHHHhcCCHHHHHHHHHHHHHcC-CCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCCCCCChhHHHHH
Confidence            345543 34567899999999999888652 22   23445666777888899999999988888875443334455555


Q ss_pred             HHHH
Q 039362          106 HMYG  109 (440)
Q Consensus       106 ~~~~  109 (440)
                      .+++
T Consensus       114 kgLs  117 (254)
T COG4105         114 KGLS  117 (254)
T ss_pred             HHHH
Confidence            5544

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=95.77  E-value=0.041  Score=42.68  Aligned_cols=99  Identities=19%  Similarity=0.107  Sum_probs=61.3

Q ss_pred             HHHcCCChHHHHHHHHHHhhcCCCCCc------chHHHHHHHHHhcCCHHHHHHHHhcC-CCCccH-hHHHHHHHHHHhc
Q 039362          307 ACAHGGLVMEAWYFFKSLGKRGMVPKS------EHYACMVDALSRAGQVTEAYEFICQM-PLEPTA-SMLGSLLTGCMNH  378 (440)
Q Consensus       307 ~~~~~~~~~~a~~~~~~~~~~~~~~~~------~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p~~-~~~~~l~~~~~~~  378 (440)
                      -+.+.|++++|..-|..++..-  |..      ..|..-..++.+.+.++.|+.-..+. .+.|.. ..+..-..+|-+.
T Consensus       104 ~~F~ngdyeeA~skY~~Ale~c--p~~~~e~rsIly~Nraaa~iKl~k~e~aI~dcsKaiel~pty~kAl~RRAeayek~  181 (271)
T KOG4234|consen  104 ELFKNGDYEEANSKYQEALESC--PSTSTEERSILYSNRAAALIKLRKWESAIEDCSKAIELNPTYEKALERRAEAYEKM  181 (271)
T ss_pred             HhhhcccHHHHHHHHHHHHHhC--ccccHHHHHHHHhhhHHHHHHhhhHHHHHHHHHhhHhcCchhHHHHHHHHHHHHhh
Confidence            4567788888888888877752  221      23444455666777777777766665 555532 2223334556677


Q ss_pred             CChhHHHHHHHHHHhcCCCCCchHHHHHH
Q 039362          379 GKLDLAEIVGKKLVELQPDHDGRYVGLSN  407 (440)
Q Consensus       379 g~~~~a~~~~~~~~~~~~~~~~~~~~l~~  407 (440)
                      .++++|++-|+++.+.+|.....-...+.
T Consensus       182 ek~eealeDyKki~E~dPs~~ear~~i~r  210 (271)
T KOG4234|consen  182 EKYEEALEDYKKILESDPSRREAREAIAR  210 (271)
T ss_pred             hhHHHHHHHHHHHHHhCcchHHHHHHHHh
Confidence            77788888888888777776644444333

>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=95.77  E-value=3.8  Score=44.63  Aligned_cols=311  Identities=10%  Similarity=0.002  Sum_probs=167.6

Q ss_pred             HHHHHHHhcCCHHHHHHHhhCC----CCCc--hhhHHHHHHHHHhcCChHHHHHHHhh-CCCCchhhHHHHHHHHHhcCC
Q 039362          103 SLIHMYGSCGDIVYAREVFDGM----PTKM--SVSWNSMLDGYAKCGEMNMARQVFEL-MPERNVVSWSALIDGYVKCGD  175 (440)
Q Consensus       103 ~l~~~~~~~g~~~~a~~~~~~~----~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~-~~~~~~~~~~~l~~~~~~~~~  175 (440)
                      .+..+-.+++.+..|...+++-    .+.+  ...+..+...|...++.|....+... ..+++  .+. -+......|+
T Consensus      1388 tLa~aSfrc~~y~RalmylEs~~~~ek~~~~~e~l~fllq~lY~~i~dpDgV~Gv~~~r~a~~s--l~~-qil~~e~~g~ 1464 (2382)
T KOG0890|consen 1388 TLARASFRCKAYARALMYLESHRSTEKEKETEEALYFLLQNLYGSIHDPDGVEGVSARRFADPS--LYQ-QILEHEASGN 1464 (2382)
T ss_pred             HHHHHHHhhHHHHHHHHHHHHhccccchhHHHHHHHHHHHHHHHhcCCcchhhhHHHHhhcCcc--HHH-HHHHHHhhcc
Confidence            4445666778888888888873    2211  12344444488888888888777763 33332  222 3445567899


Q ss_pred             HHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhH-HHHHHHHHhcCCHHHHHHHHh
Q 039362          176 YKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQ-TSLIDMYAKCGAIKEALIVFH  254 (440)
Q Consensus       176 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-~~l~~~~~~~g~~~~A~~~~~  254 (440)
                      +..|...|+.+.+.+ ++...+++-++......|.++...-..+-..... .+....+ +.-+.+--+.++++.......
T Consensus      1465 ~~da~~Cye~~~q~~-p~~~~~~~g~l~sml~~~~l~t~i~~~dg~~~~~-se~~~~~~s~~~eaaW~l~qwD~~e~~l~ 1542 (2382)
T KOG0890|consen 1465 WADAAACYERLIQKD-PDKEKHHSGVLKSMLAIQHLSTEILHLDGLIINR-SEEVDELNSLGVEAAWRLSQWDLLESYLS 1542 (2382)
T ss_pred             HHHHHHHHHHhhcCC-CccccchhhHHHhhhcccchhHHHhhhcchhhcc-CHHHHHHHHHHHHHHhhhcchhhhhhhhh
Confidence            999999999998774 4446677777777777788777776555544332 2222222 222344456667766665544


Q ss_pred             hhhhcCCchhhHHHH--HHHHHhcCChH--HHHHHHHHHHHcCCCc---------cHhhHHHHHHHHHcCCChHHHHHHH
Q 039362          255 GVEKHQSDVLIWNAM--IGGLAMHGFVK--ESLELFTEMQIVGITP---------DEITFLGLLSACAHGGLVMEAWYFF  321 (440)
Q Consensus       255 ~~~~~~~~~~~~~~l--~~~~~~~~~~~--~a~~~~~~m~~~~~~p---------~~~~~~~l~~~~~~~~~~~~a~~~~  321 (440)
                           ..+..+|...  +..+.+..+-+  .-.+..+.+++.-+.|         -...|..++....-. +.+.-.   
T Consensus      1543 -----~~n~e~w~~~~~g~~ll~~~~kD~~~~~~~i~~~r~~~i~~lsa~s~~~Sy~~~Y~~~~kLH~l~-el~~~~--- 1613 (2382)
T KOG0890|consen 1543 -----DRNIEYWSVESIGKLLLRNKKKDEIATLDLIENSRELVIENLSACSIEGSYVRSYEILMKLHLLL-ELENSI--- 1613 (2382)
T ss_pred             -----cccccchhHHHHHHHHHhhcccchhhHHHHHHHHHHHhhhhHHHhhccchHHHHHHHHHHHHHHH-HHHHHH---
Confidence                 2233333332  33333222211  1112333332221111         012233333332211 111111   


Q ss_pred             HHHhhcCCCCCcc------hHHHHHHHHHhcCCHHHHHHHHhcC----CCCc-----cHhHHHHHHHHHHhcCChhHHHH
Q 039362          322 KSLGKRGMVPKSE------HYACMVDALSRAGQVTEAYEFICQM----PLEP-----TASMLGSLLTGCMNHGKLDLAEI  386 (440)
Q Consensus       322 ~~~~~~~~~~~~~------~~~~l~~~~~~~~~~~~a~~~~~~~----~~~p-----~~~~~~~l~~~~~~~g~~~~a~~  386 (440)
                      +.+.  +..++..      .|..-+..-....+..+-+--+++.    ...|     -..+|...++.....|+++.|..
T Consensus      1614 ~~l~--~~s~~~~s~~~sd~W~~Rl~~tq~s~~~~epILa~RRs~l~~~~~~~~~~~~ge~wLqsAriaR~aG~~q~A~n 1691 (2382)
T KOG0890|consen 1614 EELK--KVSYDEDSANNSDNWKNRLERTQPSFRIKEPILAFRRSMLDLRMRSNLKSRLGECWLQSARIARLAGHLQRAQN 1691 (2382)
T ss_pred             HHhh--ccCccccccccchhHHHHHHHhchhHHHHhHHHHHHHHHHHHhccccccchhHHHHHHHHHHHHhcccHHHHHH
Confidence            1111  1222211      1222211111111122211111111    1121     34678888888888999999998


Q ss_pred             HHHHHHhcCCCCCchHHHHHHHHHhccChHHHHHHHHHHHhcCCc
Q 039362          387 VGKKLVELQPDHDGRYVGLSNVYAIFKRWDEARTTREAMETRGVK  431 (440)
Q Consensus       387 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  431 (440)
                      .+-.+.+..+  +..+.-.+..++..|+...|+.++++.++.+.+
T Consensus      1692 all~A~e~r~--~~i~~E~AK~lW~~gd~~~Al~~Lq~~l~~~~~ 1734 (2382)
T KOG0890|consen 1692 ALLNAKESRL--PEIVLERAKLLWQTGDELNALSVLQEILSKNFP 1734 (2382)
T ss_pred             HHHhhhhccc--chHHHHHHHHHHhhccHHHHHHHHHHHHHhhcc
Confidence            8888877773  447888899999999999999999999876553

>PF08631 SPO22: Meiosis protein SPO22/ZIP4 like; InterPro: IPR013940 SPO22 is a meiosis-specific protein with similarity to phospholipase A2, involved in completion of nuclear divisions during meiosis; induced early in meiosis []

Probab=95.70  E-value=1.2  Score=38.17  Aligned_cols=18  Identities=11%  Similarity=-0.178  Sum_probs=12.4

Q ss_pred             HHhcCChhHHHHHHHHHH
Q 039362          375 CMNHGKLDLAEIVGKKLV  392 (440)
Q Consensus       375 ~~~~g~~~~a~~~~~~~~  392 (440)
                      +.+.++++.|...|+-..
T Consensus       256 ~~~~k~y~~A~~w~~~al  273 (278)
T PF08631_consen  256 HYKAKNYDEAIEWYELAL  273 (278)
T ss_pred             HHhhcCHHHHHHHHHHHH
Confidence            446777888887777543

It is also involved in sporulation [].

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=95.70  E-value=0.32  Score=37.02  Aligned_cols=120  Identities=15%  Similarity=0.139  Sum_probs=60.7

Q ss_pred             HhcCChHHHHHHHHHHHHcCCCccHh-hHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCCcc-hHHH--HHHHHHhcCCH
Q 039362          274 AMHGFVKESLELFTEMQIVGITPDEI-TFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSE-HYAC--MVDALSRAGQV  349 (440)
Q Consensus       274 ~~~~~~~~a~~~~~~m~~~~~~p~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~--l~~~~~~~~~~  349 (440)
                      .+.+..++|+.-|..+.+.|...-+. ............|+...|...|+++-.....|-.. -...  -.-.+...|.+
T Consensus        69 A~~~k~d~Alaaf~~lektg~g~YpvLA~mr~at~~a~kgdta~AV~aFdeia~dt~~P~~~rd~ARlraa~lLvD~gsy  148 (221)
T COG4649          69 AQENKTDDALAAFTDLEKTGYGSYPVLARMRAATLLAQKGDTAAAVAAFDEIAADTSIPQIGRDLARLRAAYLLVDNGSY  148 (221)
T ss_pred             HHcCCchHHHHHHHHHHhcCCCcchHHHHHHHHHHHhhcccHHHHHHHHHHHhccCCCcchhhHHHHHHHHHHHhccccH
Confidence            45566677777777776655332111 11122223445667777777777766543223221 0111  11234456666


Q ss_pred             HHHHHHHhcCCC--Cc-cHhHHHHHHHHHHhcCChhHHHHHHHHHHh
Q 039362          350 TEAYEFICQMPL--EP-TASMLGSLLTGCMNHGKLDLAEIVGKKLVE  393 (440)
Q Consensus       350 ~~a~~~~~~~~~--~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  393 (440)
                      +......+.+..  .| ....-..|.-+-.+.|++..|.+.|.++..
T Consensus       149 ~dV~srvepLa~d~n~mR~sArEALglAa~kagd~a~A~~~F~qia~  195 (221)
T COG4649         149 DDVSSRVEPLAGDGNPMRHSAREALGLAAYKAGDFAKAKSWFVQIAN  195 (221)
T ss_pred             HHHHHHhhhccCCCChhHHHHHHHHhHHHHhccchHHHHHHHHHHHc
Confidence            666666665511  11 122233455555566777777777666655

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=95.69  E-value=0.045  Score=39.18  Aligned_cols=91  Identities=26%  Similarity=0.220  Sum_probs=76.4

Q ss_pred             HHHHHhcCCHHHHHHHHhcC-CCCc-cHhHHHHHHHHHHhcCChhHHHHHHHHHHhcC-CCCCc---hHHHHHHHHHhcc
Q 039362          340 VDALSRAGQVTEAYEFICQM-PLEP-TASMLGSLLTGCMNHGKLDLAEIVGKKLVELQ-PDHDG---RYVGLSNVYAIFK  413 (440)
Q Consensus       340 ~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~-~~~~~---~~~~l~~~~~~~g  413 (440)
                      .-++...|+.+.|++.|.+. .+-| ....||.-..++.-+|+.++|+.-+++++++. +....   .|..-+..|...|
T Consensus        50 ~valaE~g~Ld~AlE~F~qal~l~P~raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~trtacqa~vQRg~lyRl~g  129 (175)
T KOG4555|consen   50 AIALAEAGDLDGALELFGQALCLAPERASAYNNRAQALRLQGDDEEALDDLNKALELAGDQTRTACQAFVQRGLLYRLLG  129 (175)
T ss_pred             HHHHHhccchHHHHHHHHHHHHhcccchHhhccHHHHHHHcCChHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHhC
Confidence            34577899999999999987 4444 67889999999999999999999999999986 44322   4666778899999


Q ss_pred             ChHHHHHHHHHHHhcCC
Q 039362          414 RWDEARTTREAMETRGV  430 (440)
Q Consensus       414 ~~~~A~~~~~~~~~~~~  430 (440)
                      +-+.|+.=|+...+.|.
T Consensus       130 ~dd~AR~DFe~AA~LGS  146 (175)
T KOG4555|consen  130 NDDAARADFEAAAQLGS  146 (175)
T ss_pred             chHHHHHhHHHHHHhCC
Confidence            99999999999988875

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.62  E-value=0.38  Score=40.88  Aligned_cols=152  Identities=11%  Similarity=-0.013  Sum_probs=110.7

Q ss_pred             HhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhc-CCchhhHHHH----HHHHHhcCChH
Q 039362          206 AHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKH-QSDVLIWNAM----IGGLAMHGFVK  280 (440)
Q Consensus       206 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~l----~~~~~~~~~~~  280 (440)
                      -..|++.+|...++++++.- |.|...+...-.++.-.|+.+.-...++++... .++...|.-+    .-++...|-++
T Consensus       114 ~~~g~~h~a~~~wdklL~d~-PtDlla~kfsh~a~fy~G~~~~~k~ai~kIip~wn~dlp~~sYv~GmyaFgL~E~g~y~  192 (491)
T KOG2610|consen  114 WGRGKHHEAAIEWDKLLDDY-PTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPKWNADLPCYSYVHGMYAFGLEECGIYD  192 (491)
T ss_pred             hccccccHHHHHHHHHHHhC-chhhhhhhhhhhHHHhccchhhhhhHHHHhccccCCCCcHHHHHHHHHHhhHHHhccch
Confidence            35688888888899988764 788888888888999999999999999998755 6666555433    23445779999


Q ss_pred             HHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHhhc---CCCCCcchHHHHHHHHHhcCCHHHHHHHHh
Q 039362          281 ESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKR---GMVPKSEHYACMVDALSRAGQVTEAYEFIC  357 (440)
Q Consensus       281 ~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  357 (440)
                      +|++.-++..+.+ +.|.-.-..+...+...|+..++.++..+-...   +.-.-...|-...-.+...+.++.|+++|+
T Consensus       193 dAEk~A~ralqiN-~~D~Wa~Ha~aHVlem~~r~Keg~eFM~~ted~Wr~s~mlasHNyWH~Al~~iE~aeye~aleIyD  271 (491)
T KOG2610|consen  193 DAEKQADRALQIN-RFDCWASHAKAHVLEMNGRHKEGKEFMYKTEDDWRQSWMLASHNYWHTALFHIEGAEYEKALEIYD  271 (491)
T ss_pred             hHHHHHHhhccCC-CcchHHHHHHHHHHHhcchhhhHHHHHHhcccchhhhhHHHhhhhHHHHHhhhcccchhHHHHHHH
Confidence            9999998887654 445555666777777889999999887765443   111111223344455667799999999998


Q ss_pred             cC
Q 039362          358 QM  359 (440)
Q Consensus       358 ~~  359 (440)
                      .-
T Consensus       272 ~e  273 (491)
T KOG2610|consen  272 RE  273 (491)
T ss_pred             HH
Confidence            65

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=95.56  E-value=0.98  Score=40.85  Aligned_cols=56  Identities=16%  Similarity=0.127  Sum_probs=27.3

Q ss_pred             HHHHHHcCCChHHHHHHHHHHhhcCCC-CCcchHHHHHHHHHhcCCHHHHHHHHhcC
Q 039362          304 LLSACAHGGLVMEAWYFFKSLGKRGMV-PKSEHYACMVDALSRAGQVTEAYEFICQM  359 (440)
Q Consensus       304 l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  359 (440)
                      +..++.+.|+.++|++.++++.+.... .+..+...|+.++...+.+.++..++.+.
T Consensus       265 LAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kY  321 (539)
T PF04184_consen  265 LAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKY  321 (539)
T ss_pred             HHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHh
Confidence            334444555555555555555543211 12223444555555555555555555554

The molecular function of this protein is uncertain.

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=95.45  E-value=0.051  Score=31.04  Aligned_cols=28  Identities=18%  Similarity=0.183  Sum_probs=12.8

Q ss_pred             HHHHHHHHhcCCHHHHHHHHhhhhhcCC
Q 039362          234 TSLIDMYAKCGAIKEALIVFHGVEKHQS  261 (440)
Q Consensus       234 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~  261 (440)
                      ..+...|...|++++|+++|+++.+..|
T Consensus         5 ~~la~~~~~~G~~~~A~~~~~~~l~~~P   32 (44)
T PF13428_consen    5 LALARAYRRLGQPDEAERLLRRALALDP   32 (44)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHCc
Confidence            3444444444444444444444444433

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=95.40  E-value=1.6  Score=37.75  Aligned_cols=221  Identities=14%  Similarity=0.101  Sum_probs=138.0

Q ss_pred             HHhcCChHHHHHHHhhCCCC------chhhHHHHHHHHHhcCCHHHHHHHHHHHHhc--CCCCC---HHHHHHHHHHHHh
Q 039362          139 YAKCGEMNMARQVFELMPER------NVVSWSALIDGYVKCGDYKEALVIFEEMRDV--GSKAN---EVTLVSVLCACAH  207 (440)
Q Consensus       139 ~~~~~~~~~a~~~~~~~~~~------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~---~~~~~~l~~~~~~  207 (440)
                      +....+.++|+..+.+....      ...++..+..+..+.|.+++++..--.-++.  ...-+   -..|..+.+++.+
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            44667778888777665542      2346777788888888888876543222111  00111   1244555556666


Q ss_pred             cCChHHHHHHHHHHHHc-CCCC---chhhHHHHHHHHHhcCCHHHHHHHHhhhhhc-----CC--chhhHHHHHHHHHhc
Q 039362          208 LGALDQGRMMLRYMIDK-GLSL---TLPLQTSLIDMYAKCGAIKEALIVFHGVEKH-----QS--DVLIWNAMIGGLAMH  276 (440)
Q Consensus       208 ~~~~~~a~~~~~~~~~~-~~~~---~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-----~~--~~~~~~~l~~~~~~~  276 (440)
                      .-++.+++.+-..-... |..+   .-.....+..++...+.++++++.|+...+.     .|  ....+-.+...|.+.
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            66666666665554432 1111   1123445677777888899999999987654     22  345788899999999


Q ss_pred             CChHHHHHHHHHHHH----cCCCccHhhHH-----HHHHHHHcCCChHHHHHHHHHHhhc----CCCC-CcchHHHHHHH
Q 039362          277 GFVKESLELFTEMQI----VGITPDEITFL-----GLLSACAHGGLVMEAWYFFKSLGKR----GMVP-KSEHYACMVDA  342 (440)
Q Consensus       277 ~~~~~a~~~~~~m~~----~~~~p~~~~~~-----~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~  342 (440)
                      .++++|.-...+..+    .++..-..-|.     .+.-++...|..-.|.+.-++..+.    |-.+ .......+.+.
T Consensus       176 ~D~~Kal~f~~kA~~lv~s~~l~d~~~kyr~~~lyhmaValR~~G~LgdA~e~C~Ea~klal~~Gdra~~arc~~~~aDI  255 (518)
T KOG1941|consen  176 KDYEKALFFPCKAAELVNSYGLKDWSLKYRAMSLYHMAVALRLLGRLGDAMECCEEAMKLALQHGDRALQARCLLCFADI  255 (518)
T ss_pred             HhhhHHhhhhHhHHHHHHhcCcCchhHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHhCChHHHHHHHHHHHHH
Confidence            999999887776543    23222222333     3344566778888888887776654    3222 22334567788


Q ss_pred             HHhcCCHHHHHHHHhcC
Q 039362          343 LSRAGQVTEAYEFICQM  359 (440)
Q Consensus       343 ~~~~~~~~~a~~~~~~~  359 (440)
                      |...|+.+.|..-|++.
T Consensus       256 yR~~gd~e~af~rYe~A  272 (518)
T KOG1941|consen  256 YRSRGDLERAFRRYEQA  272 (518)
T ss_pred             HHhcccHhHHHHHHHHH
Confidence            88999999998888865

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=95.30  E-value=0.87  Score=34.13  Aligned_cols=44  Identities=11%  Similarity=0.076  Sum_probs=23.8

Q ss_pred             HHHHHHhhchhcHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhc
Q 039362           67 PFLAKASGRLAKRELAVAVHAQIAKTGYESDLFISNSLIHMYGSC  111 (440)
Q Consensus        67 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  111 (440)
                      ..++..+...+.+......++.+...+. .+...++.++..|++.
T Consensus        11 ~~vv~~~~~~~~~~~l~~yLe~~~~~~~-~~~~~~~~li~ly~~~   54 (140)
T smart00299       11 SEVVELFEKRNLLEELIPYLESALKLNS-ENPALQTKLIELYAKY   54 (140)
T ss_pred             HHHHHHHHhCCcHHHHHHHHHHHHccCc-cchhHHHHHHHHHHHH
Confidence            3444555445555556666666555542 3555556666666544

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.16  E-value=1.4  Score=35.81  Aligned_cols=56  Identities=9%  Similarity=0.155  Sum_probs=28.7

Q ss_pred             HHHHHHHHHcCCChHHHHHHHHHHhhc-CC--CCCcchHHHHHHHHHhcCCHHHHHHHHh
Q 039362          301 FLGLLSACAHGGLVMEAWYFFKSLGKR-GM--VPKSEHYACMVDALSRAGQVTEAYEFIC  357 (440)
Q Consensus       301 ~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~  357 (440)
                      |...|-.+....++..|...++.-.+. ++  .-+..+...|+.+| ..|+.+++..++.
T Consensus       193 ~va~ilv~L~~~Dyv~aekc~r~~~qip~f~~sed~r~lenLL~ay-d~gD~E~~~kvl~  251 (308)
T KOG1585|consen  193 YVAAILVYLYAHDYVQAEKCYRDCSQIPAFLKSEDSRSLENLLTAY-DEGDIEEIKKVLS  251 (308)
T ss_pred             HHHHHHHHhhHHHHHHHHHHhcchhcCccccChHHHHHHHHHHHHh-ccCCHHHHHHHHc
Confidence            444444555556677777666654333 11  11333445555554 3456666655554

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=95.15  E-value=0.59  Score=42.17  Aligned_cols=64  Identities=11%  Similarity=0.159  Sum_probs=43.5

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHhcC-CCCcc---HhHHHHHHHHHHhcCChhHHHHHHHHHHhcC-CCCC
Q 039362          336 YACMVDALSRAGQVTEAYEFICQM-PLEPT---ASMLGSLLTGCMNHGKLDLAEIVGKKLVELQ-PDHD  399 (440)
Q Consensus       336 ~~~l~~~~~~~~~~~~a~~~~~~~-~~~p~---~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~-~~~~  399 (440)
                      -..+..+..+.|+.++|++.++++ +..|.   ..+...|+.++...+.+.++..++.+.-+.. |++.
T Consensus       262 KrRLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdDi~lpkSA  330 (539)
T PF04184_consen  262 KRRLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDDISLPKSA  330 (539)
T ss_pred             HHHHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhccccCCchH
Confidence            345666677788888888888877 33332   2455677888888888888888888875543 4443

The molecular function of this protein is uncertain.

>PRK09687 putative lyase; Provisional

Probab=95.10  E-value=1.9  Score=36.86  Aligned_cols=137  Identities=12%  Similarity=-0.017  Sum_probs=66.3

Q ss_pred             CchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcC-ChHHHHHHHHHHHHcCCCCchhhHHHH
Q 039362          158 RNVVSWSALIDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLG-ALDQGRMMLRYMIDKGLSLTLPLQTSL  236 (440)
Q Consensus       158 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l  236 (440)
                      ++..+-...+.++.+.++ +.+...+-.+.+   .++...-...+.++...+ +...+...+..+..   .++..+-...
T Consensus       140 ~~~~VR~~a~~aLg~~~~-~~ai~~L~~~L~---d~~~~VR~~A~~aLg~~~~~~~~~~~~L~~~L~---D~~~~VR~~A  212 (280)
T PRK09687        140 KSTNVRFAVAFALSVIND-EAAIPLLINLLK---DPNGDVRNWAAFALNSNKYDNPDIREAFVAMLQ---DKNEEIRIEA  212 (280)
T ss_pred             CCHHHHHHHHHHHhccCC-HHHHHHHHHHhc---CCCHHHHHHHHHHHhcCCCCCHHHHHHHHHHhc---CCChHHHHHH
Confidence            344444444555555554 344444444443   233334444444444432 12344444444442   3445555556


Q ss_pred             HHHHHhcCCHHHHHHHHhhhhhcCCchhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHH
Q 039362          237 IDMYAKCGAIKEALIVFHGVEKHQSDVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSAC  308 (440)
Q Consensus       237 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~  308 (440)
                      +.++.+.|+. .|...+-...+ .++  .....+.++...|.. +|+..+..+.+.  .||...-...+.+|
T Consensus       213 ~~aLg~~~~~-~av~~Li~~L~-~~~--~~~~a~~ALg~ig~~-~a~p~L~~l~~~--~~d~~v~~~a~~a~  277 (280)
T PRK09687        213 IIGLALRKDK-RVLSVLIKELK-KGT--VGDLIIEAAGELGDK-TLLPVLDTLLYK--FDDNEIITKAIDKL  277 (280)
T ss_pred             HHHHHccCCh-hHHHHHHHHHc-CCc--hHHHHHHHHHhcCCH-hHHHHHHHHHhh--CCChhHHHHHHHHH
Confidence            6666666663 34444433332 222  233556666666664 577777766654  34555555555544

>PF08631 SPO22: Meiosis protein SPO22/ZIP4 like; InterPro: IPR013940 SPO22 is a meiosis-specific protein with similarity to phospholipase A2, involved in completion of nuclear divisions during meiosis; induced early in meiosis []

Probab=95.08  E-value=1.9  Score=36.86  Aligned_cols=21  Identities=24%  Similarity=0.004  Sum_probs=16.1

Q ss_pred             HHHHHhccChHHHHHHHHHHH
Q 039362          406 SNVYAIFKRWDEARTTREAME  426 (440)
Q Consensus       406 ~~~~~~~g~~~~A~~~~~~~~  426 (440)
                      +..+.+.++|++|.+.++-..
T Consensus       253 ~~~~~~~k~y~~A~~w~~~al  273 (278)
T PF08631_consen  253 GKKHYKAKNYDEAIEWYELAL  273 (278)
T ss_pred             HHHHHhhcCHHHHHHHHHHHH
Confidence            445677899999999987543

It is also involved in sporulation [].

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=95.06  E-value=0.05  Score=29.43  Aligned_cols=26  Identities=15%  Similarity=0.141  Sum_probs=19.5

Q ss_pred             hHHHHHHHHHhccChHHHHHHHHHHH
Q 039362          401 RYVGLSNVYAIFKRWDEARTTREAME  426 (440)
Q Consensus       401 ~~~~l~~~~~~~g~~~~A~~~~~~~~  426 (440)
                      ++..++.+|.+.|++++|.+++++.+
T Consensus         1 al~~Lg~~~~~~g~~~~Ai~~y~~aL   26 (36)
T PF13176_consen    1 ALNNLGRIYRQQGDYEKAIEYYEQAL   26 (36)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            35678888888888888888888854

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=95.02  E-value=0.31  Score=40.86  Aligned_cols=77  Identities=12%  Similarity=0.190  Sum_probs=56.1

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHhhhhhcCC-chhhHHHHHHHHHhcCChHHHHHHHHHHHH-----cCCCccHhhHHHH
Q 039362          231 PLQTSLIDMYAKCGAIKEALIVFHGVEKHQS-DVLIWNAMIGGLAMHGFVKESLELFTEMQI-----VGITPDEITFLGL  304 (440)
Q Consensus       231 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~-----~~~~p~~~~~~~l  304 (440)
                      .++..++..+...|+.+.+...++++....| +...|..+|.+|.+.|+...|+..|+.+..     .|+.|...+....
T Consensus       154 ~~l~~lae~~~~~~~~~~~~~~l~~Li~~dp~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~~~y  233 (280)
T COG3629         154 KALTKLAEALIACGRADAVIEHLERLIELDPYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELRALY  233 (280)
T ss_pred             HHHHHHHHHHHhcccHHHHHHHHHHHHhcCccchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHHHHH
Confidence            4556677777778888888888888776666 677788888888888888888888877654     4677776665554


Q ss_pred             HHH
Q 039362          305 LSA  307 (440)
Q Consensus       305 ~~~  307 (440)
                      ...
T Consensus       234 ~~~  236 (280)
T COG3629         234 EEI  236 (280)
T ss_pred             HHH
Confidence            444

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=94.93  E-value=4.8  Score=40.71  Aligned_cols=89  Identities=15%  Similarity=0.149  Sum_probs=53.4

Q ss_pred             CCCHHHHHH----HHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCCch--hh
Q 039362          192 KANEVTLVS----VLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQSDV--LI  265 (440)
Q Consensus       192 ~~~~~~~~~----l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~--~~  265 (440)
                      .|+...+..    ....+...+.+++|.-.|+..-+.         ...+.+|..+|+|++|+.+-.++... .+.  .+
T Consensus       932 ~~~~e~~k~i~~~ya~hL~~~~~~~~Aal~Ye~~Gkl---------ekAl~a~~~~~dWr~~l~~a~ql~~~-~de~~~~ 1001 (1265)
T KOG1920|consen  932 KPDSEKQKVIYEAYADHLREELMSDEAALMYERCGKL---------EKALKAYKECGDWREALSLAAQLSEG-KDELVIL 1001 (1265)
T ss_pred             ccCHHHHHHHHHHHHHHHHHhccccHHHHHHHHhccH---------HHHHHHHHHhccHHHHHHHHHhhcCC-HHHHHHH
Confidence            445444433    334445566677776666554322         23466777788888888777766521 121  22


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHH
Q 039362          266 WNAMIGGLAMHGFVKESLELFTEMQ  290 (440)
Q Consensus       266 ~~~l~~~~~~~~~~~~a~~~~~~m~  290 (440)
                      -..|+.-+...+++-+|-++..+..
T Consensus      1002 a~~L~s~L~e~~kh~eAa~il~e~~ 1026 (1265)
T KOG1920|consen 1002 AEELVSRLVEQRKHYEAAKILLEYL 1026 (1265)
T ss_pred             HHHHHHHHHHcccchhHHHHHHHHh
Confidence            3567777777888888887777654

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=94.90  E-value=0.051  Score=29.39  Aligned_cols=28  Identities=18%  Similarity=0.075  Sum_probs=21.8

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHHhc
Q 039362          367 MLGSLLTGCMNHGKLDLAEIVGKKLVEL  394 (440)
Q Consensus       367 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~  394 (440)
                      +|..|...|.+.|++++|++++++++.+
T Consensus         1 al~~Lg~~~~~~g~~~~Ai~~y~~aL~l   28 (36)
T PF13176_consen    1 ALNNLGRIYRQQGDYEKAIEYYEQALAL   28 (36)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            4677888899999999999999986543

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=94.88  E-value=0.17  Score=42.46  Aligned_cols=60  Identities=22%  Similarity=0.300  Sum_probs=32.1

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHhcCCCCCchHHHHHHHHHhccChHHHHHHHHHHHh
Q 039362          368 LGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEARTTREAMET  427 (440)
Q Consensus       368 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  427 (440)
                      +..++..+...|+.+.+.+.++++...+|-+...|..++.+|.+.|+...|+..|+++.+
T Consensus       156 l~~lae~~~~~~~~~~~~~~l~~Li~~dp~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~  215 (280)
T COG3629         156 LTKLAEALIACGRADAVIEHLERLIELDPYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKK  215 (280)
T ss_pred             HHHHHHHHHhcccHHHHHHHHHHHHhcCccchHHHHHHHHHHHHcCCchHHHHHHHHHHH
Confidence            334444455555555555555555555555555555555555555555555555555443

>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=94.83  E-value=0.061  Score=28.50  Aligned_cols=30  Identities=23%  Similarity=0.071  Sum_probs=20.9

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHHhcCC
Q 039362          367 MLGSLLTGCMNHGKLDLAEIVGKKLVELQP  396 (440)
Q Consensus       367 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  396 (440)
                      +|..+...+...|++++|...|+++++..|
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            455666667777777777777777777666

...

>PF04097 Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic96 is a component of the nuclear pore complex

Probab=94.83  E-value=4.1  Score=39.40  Aligned_cols=87  Identities=13%  Similarity=0.132  Sum_probs=41.3

Q ss_pred             HHHHHHhcCCHHHHHHHHhcCCCCccH-hHHHHHHHHH-HhcCC-----------hhHHHHHHHHHHhc-------CCCC
Q 039362          339 MVDALSRAGQVTEAYEFICQMPLEPTA-SMLGSLLTGC-MNHGK-----------LDLAEIVGKKLVEL-------QPDH  398 (440)
Q Consensus       339 l~~~~~~~~~~~~a~~~~~~~~~~p~~-~~~~~l~~~~-~~~g~-----------~~~a~~~~~~~~~~-------~~~~  398 (440)
                      ...-+...|++++|..+|.-.+-...+ .+.+.++.-. .....           ...|..+.+.....       .+..
T Consensus       420 ~A~~~e~~g~~~dAi~Ly~La~~~d~vl~lln~~Ls~~l~~~~~~~~~~s~~~~l~~la~~i~~~y~~~~~~~~~~~~~~  499 (613)
T PF04097_consen  420 AAREAEERGRFEDAILLYHLAEEYDKVLSLLNRLLSQVLSQPSSSSLSDSERERLIELAKEILERYKSNPHISSKVSRKN  499 (613)
T ss_dssp             HHHHHHHCT-HHHHHHHHHHTT-HHHHHHHHHHHHHHHHHCSSTSSSSSTTTTSHHHHHHHHHHHHTTSHHHHTTS-HHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHhhHHHHHHHHHHHHHHHHcCccccccccchhhhHHHHHHHHHHHHHhCcchHhhccHHH
Confidence            344456778888888888877522111 3333333322 22222           22333333333221       1111


Q ss_pred             CchHHHHHHH-----HHhccChHHHHHHHHHH
Q 039362          399 DGRYVGLSNV-----YAIFKRWDEARTTREAM  425 (440)
Q Consensus       399 ~~~~~~l~~~-----~~~~g~~~~A~~~~~~~  425 (440)
                      ..++..|...     +...|+|++|++.++++
T Consensus       500 ~~t~~~Ll~L~~ff~~~~~g~~~~AL~~i~~L  531 (613)
T PF04097_consen  500 RETFQLLLDLAEFFDLYHAGQYEQALDIIEKL  531 (613)
T ss_dssp             HHHHHHHHHHHHHHHHHHTT-HHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHHHHHcCCHHHHHHHHHhC
Confidence            2233333332     46789999998888765

It is required for the correct assembly of the nuclear pore complex []. In Saccharomyces cerevisiae, Nic96 has been shown to be involved in the distribution and cellular concentration of the GTPase Gsp1 []. The structure of Nic96 has revealed a mostly alpha helical structure [].; GO: 0006810 transport, 0005643 nuclear pore; PDB: 2QX5_B 2RFO_A.

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=94.74  E-value=2.9  Score=37.23  Aligned_cols=66  Identities=14%  Similarity=0.064  Sum_probs=49.3

Q ss_pred             ccHhHHHHHHHHHHhcCChhHHHHHHHHHHhcCC----CCCchHHHHHHHHHhccChHHHHHHHHHHHhc
Q 039362          363 PTASMLGSLLTGCMNHGKLDLAEIVGKKLVELQP----DHDGRYVGLSNVYAIFKRWDEARTTREAMETR  428 (440)
Q Consensus       363 p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~----~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  428 (440)
                      ....+|..++..+.+.|.++.|...+.++...++    ..+.+....+..+...|+..+|...++.....
T Consensus       144 ~~~~~~l~~a~~aRk~g~~~~A~~~l~~~~~~~~~~~~~~~~v~~e~akllw~~g~~~~Ai~~L~~~~~~  213 (352)
T PF02259_consen  144 ELAETWLKFAKLARKAGNFQLALSALNRLFQLNPSSESLLPRVFLEYAKLLWAQGEQEEAIQKLRELLKC  213 (352)
T ss_pred             HHHHHHHHHHHHHHHCCCcHHHHHHHHHHhccCCcccCCCcchHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            3446777788888888888888888888877552    13456667777888888888888888877773

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>KOG1258 consensus mRNA processing protein [RNA processing and modification]

Probab=94.68  E-value=3.7  Score=38.17  Aligned_cols=360  Identities=11%  Similarity=0.033  Sum_probs=178.2

Q ss_pred             hhHHHHhhhcC--CCChH-HHHHHHHHHHccCChhhHHHHHHHHHHcCCCCCcchHHHHHHHh-hchhcHHHHHHHHHHH
Q 039362           14 DYSCKVLSHLS--NPRIF-YWNTVIRGYSKSKNPNKSISLFVKMLRAGVSPDHLTYPFLAKAS-GRLAKRELAVAVHAQI   89 (440)
Q Consensus        14 ~~A~~~~~~~~--~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~-~~~~~~~~a~~~~~~~   89 (440)
                      +.++..++.+.  -|... -|-.....=.+.|..+.+..+|++.... ++.+...|......+ ...|+.+...+.|+.+
T Consensus        62 ~~~r~~y~~fL~kyPl~~gyW~kfA~~E~klg~~~~s~~Vfergv~a-ip~SvdlW~~Y~~f~~n~~~d~~~lr~~fe~A  140 (577)
T KOG1258|consen   62 DALREVYDIFLSKYPLCYGYWKKFADYEYKLGNAENSVKVFERGVQA-IPLSVDLWLSYLAFLKNNNGDPETLRDLFERA  140 (577)
T ss_pred             HHHHHHHHHHHhhCccHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHh-hhhHHHHHHHHHHHHhccCCCHHHHHHHHHHH
Confidence            34444455443  34443 4555555555666666666666666543 444444444444333 2345566666666666


Q ss_pred             HHc-CCC-CcHHHHHHHHHHHHhcCCHHHHHHHhhCCCCCchhhHHHHHHHHH---h------cCChHHHHH--------
Q 039362           90 AKT-GYE-SDLFISNSLIHMYGSCGDIVYAREVFDGMPTKMSVSWNSMLDGYA---K------CGEMNMARQ--------  150 (440)
Q Consensus        90 ~~~-~~~-~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~---~------~~~~~~a~~--------  150 (440)
                      ... |.. .+...+...|..-...+++.....+++++.+.....++..-..|.   .      ....+++.+        
T Consensus       141 ~~~vG~dF~S~~lWdkyie~en~qks~k~v~~iyeRileiP~~~~~~~f~~f~~~l~~~~~~~l~~~d~~~~l~~~~~~~  220 (577)
T KOG1258|consen  141 KSYVGLDFLSDPLWDKYIEFENGQKSWKRVANIYERILEIPLHQLNRHFDRFKQLLNQNEEKILLSIDELIQLRSDVAER  220 (577)
T ss_pred             HHhcccchhccHHHHHHHHHHhccccHHHHHHHHHHHHhhhhhHhHHHHHHHHHHHhcCChhhhcCHHHHHHHhhhHHhh
Confidence            553 111 123345555555555666666666666655422222221111110   0      011111111        


Q ss_pred             ---------------HHhhCCCCch---hhHH-------HHHHHHHhcCCHHHHHHHHHHHHhc---CCCC----CHHHH
Q 039362          151 ---------------VFELMPERNV---VSWS-------ALIDGYVKCGDYKEALVIFEEMRDV---GSKA----NEVTL  198 (440)
Q Consensus       151 ---------------~~~~~~~~~~---~~~~-------~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~----~~~~~  198 (440)
                                     ..+.+..|..   ...+       ..-..+............++.-...   .+.|    +..+|
T Consensus       221 ~~~~~~~~~~e~~~~~v~~~~~~s~~l~~~~~~l~~~~~~~~~~~~~s~~~~~kr~~fE~~IkrpYfhvkpl~~aql~nw  300 (577)
T KOG1258|consen  221 SKITHSQEPLEELEIGVKDSTDPSKSLTEEKTILKRIVSIHEKVYQKSEEEEEKRWGFEEGIKRPYFHVKPLDQAQLKNW  300 (577)
T ss_pred             hhcccccChhHHHHHHHhhccCccchhhHHHHHHHHHHHHHHHHHHhhHhHHHHHHhhhhhccccccccCcccHHHHHHH
Confidence                           1111111110   0011       1111222223333333344433322   1222    33556


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhc-CCchhhHHHHHHHHH-hc
Q 039362          199 VSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKH-QSDVLIWNAMIGGLA-MH  276 (440)
Q Consensus       199 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~l~~~~~-~~  276 (440)
                      ..-+.--...|+.+.+.-.++...-.. ..-...|-..+.-....|+.+-|..++....+. .|+......+-..+. ..
T Consensus       301 ~~yLdf~i~~g~~~~~~~l~ercli~c-A~Y~efWiky~~~m~~~~~~~~~~~~~~~~~~i~~k~~~~i~L~~a~f~e~~  379 (577)
T KOG1258|consen  301 RYYLDFEITLGDFSRVFILFERCLIPC-ALYDEFWIKYARWMESSGDVSLANNVLARACKIHVKKTPIIHLLEARFEESN  379 (577)
T ss_pred             HHHhhhhhhcccHHHHHHHHHHHHhHH-hhhHHHHHHHHHHHHHcCchhHHHHHHHhhhhhcCCCCcHHHHHHHHHHHhh
Confidence            666666678888888888888775332 222334444444455558888888887776654 233322222223333 45


Q ss_pred             CChHHHHHHHHHHHHcCCCccHhh-HHHHHHHHHcCCChHHHH---HHHHHHhhcCCCCCcchHHHHHHH-----HHhcC
Q 039362          277 GFVKESLELFTEMQIVGITPDEIT-FLGLLSACAHGGLVMEAW---YFFKSLGKRGMVPKSEHYACMVDA-----LSRAG  347 (440)
Q Consensus       277 ~~~~~a~~~~~~m~~~~~~p~~~~-~~~l~~~~~~~~~~~~a~---~~~~~~~~~~~~~~~~~~~~l~~~-----~~~~~  347 (440)
                      |+++.|..+++.....-  |+..- -..-+....+.|+.+.+.   .++......  .-+..+...+.--     +.-.+
T Consensus       380 ~n~~~A~~~lq~i~~e~--pg~v~~~l~~~~~e~r~~~~~~~~~~~~l~s~~~~~--~~~~~i~~~l~~~~~r~~~~i~~  455 (577)
T KOG1258|consen  380 GNFDDAKVILQRIESEY--PGLVEVVLRKINWERRKGNLEDANYKNELYSSIYEG--KENNGILEKLYVKFARLRYKIRE  455 (577)
T ss_pred             ccHHHHHHHHHHHHhhC--CchhhhHHHHHhHHHHhcchhhhhHHHHHHHHhccc--ccCcchhHHHHHHHHHHHHHHhc
Confidence            79999999999988763  55432 122233344667777776   333333322  1222222222222     33467


Q ss_pred             CHHHHHHHHhcC-C-CCccHhHHHHHHHHHHhcC
Q 039362          348 QVTEAYEFICQM-P-LEPTASMLGSLLTGCMNHG  379 (440)
Q Consensus       348 ~~~~a~~~~~~~-~-~~p~~~~~~~l~~~~~~~g  379 (440)
                      +.+.|..++.++ . ..++...|..++..+...+
T Consensus       456 d~~~a~~~l~~~~~~~~~~k~~~~~~~~~~~~~~  489 (577)
T KOG1258|consen  456 DADLARIILLEANDILPDCKVLYLELIRFELIQP  489 (577)
T ss_pred             CHHHHHHHHHHhhhcCCccHHHHHHHHHHHHhCC
Confidence            889999999988 4 3445567777777766554

>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=94.67  E-value=0.067  Score=40.41  Aligned_cols=84  Identities=13%  Similarity=0.084  Sum_probs=45.0

Q ss_pred             HHHHhhchhcHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhcCCHHHHHHHhhCCCCCchhhHHHHHHHHHhcCChHHH
Q 039362           69 LAKASGRLAKRELAVAVHAQIAKTGYESDLFISNSLIHMYGSCGDIVYAREVFDGMPTKMSVSWNSMLDGYAKCGEMNMA  148 (440)
Q Consensus        69 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  148 (440)
                      ++..+.+.+.++....+++.+...+...+....+.++..|++.++.+...++++....   .....++..+.+.|-++++
T Consensus        13 vi~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~~~~~---yd~~~~~~~c~~~~l~~~a   89 (143)
T PF00637_consen   13 VISAFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLKTSNN---YDLDKALRLCEKHGLYEEA   89 (143)
T ss_dssp             CHHHCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTTSSSS---S-CTHHHHHHHTTTSHHHH
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHcccccc---cCHHHHHHHHHhcchHHHH
Confidence            4555556666666666666666655555566667777777776666666666663322   2223344444444444444


Q ss_pred             HHHHhhC
Q 039362          149 RQVFELM  155 (440)
Q Consensus       149 ~~~~~~~  155 (440)
                      .-++.++
T Consensus        90 ~~Ly~~~   96 (143)
T PF00637_consen   90 VYLYSKL   96 (143)
T ss_dssp             HHHHHCC
T ss_pred             HHHHHHc
Confidence            4444433

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.

>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=94.61  E-value=1.5  Score=33.31  Aligned_cols=55  Identities=16%  Similarity=0.072  Sum_probs=24.2

Q ss_pred             hcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCCc
Q 039362          207 HLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQSD  262 (440)
Q Consensus       207 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  262 (440)
                      ..++.+++..++..+.-.. |.....-..-...+...|++.+|+++|+.+....|.
T Consensus        22 ~~~~~~D~e~lL~ALrvLR-P~~~e~~~~~~~l~i~r~~w~dA~rlLr~l~~~~~~   76 (160)
T PF09613_consen   22 RLGDPDDAEALLDALRVLR-PEFPELDLFDGWLHIVRGDWDDALRLLRELEERAPG   76 (160)
T ss_pred             ccCChHHHHHHHHHHHHhC-CCchHHHHHHHHHHHHhCCHHHHHHHHHHHhccCCC
Confidence            4445555555555544332 222222222333444555555555555555443333

>PRK09687 putative lyase; Provisional

Probab=94.54  E-value=2.7  Score=35.94  Aligned_cols=26  Identities=12%  Similarity=-0.070  Sum_probs=13.2

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHhcCC
Q 039362          370 SLLTGCMNHGKLDLAEIVGKKLVELQP  396 (440)
Q Consensus       370 ~l~~~~~~~g~~~~a~~~~~~~~~~~~  396 (440)
                      ..+.++...|+. +|...+.++.+.+|
T Consensus       240 ~a~~ALg~ig~~-~a~p~L~~l~~~~~  265 (280)
T PRK09687        240 LIIEAAGELGDK-TLLPVLDTLLYKFD  265 (280)
T ss_pred             HHHHHHHhcCCH-hHHHHHHHHHhhCC
Confidence            344445555553 45555555555444

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=94.49  E-value=2.8  Score=36.05  Aligned_cols=127  Identities=13%  Similarity=0.145  Sum_probs=71.8

Q ss_pred             HHHHHHHHHHHcCCCCchhhHHHHHHHHHh--cC----CHHHHHHHHhhhhhcCC-----chhhHHHHHHHHHhcCCh--
Q 039362          213 QGRMMLRYMIDKGLSLTLPLQTSLIDMYAK--CG----AIKEALIVFHGVEKHQS-----DVLIWNAMIGGLAMHGFV--  279 (440)
Q Consensus       213 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~--~g----~~~~A~~~~~~~~~~~~-----~~~~~~~l~~~~~~~~~~--  279 (440)
                      +...+++.+.+.|+..+..++-+.......  ..    ...+|..+|+.|.+..|     +...+..++..  ..++.  
T Consensus        80 ~~~~~y~~L~~~gFk~~~y~~laA~~i~~~~~~~~~~~~~~ra~~iy~~mKk~H~fLTs~~D~~~a~lLA~--~~~~~e~  157 (297)
T PF13170_consen   80 EVLDIYEKLKEAGFKRSEYLYLAALIILEEEEKEDYDEIIQRAKEIYKEMKKKHPFLTSPEDYPFAALLAM--TSEDVEE  157 (297)
T ss_pred             HHHHHHHHHHHhccCccChHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHhCccccCccchhHHHHHhc--ccccHHH
Confidence            344566666666666665544432222222  11    24567777777776644     44455555443  33333  


Q ss_pred             --HHHHHHHHHHHHcCCCccHh--hHHHHHHHHHcCCC--hHHHHHHHHHHhhcCCCCCcchHHHHHH
Q 039362          280 --KESLELFTEMQIVGITPDEI--TFLGLLSACAHGGL--VMEAWYFFKSLGKRGMVPKSEHYACMVD  341 (440)
Q Consensus       280 --~~a~~~~~~m~~~~~~p~~~--~~~~l~~~~~~~~~--~~~a~~~~~~~~~~~~~~~~~~~~~l~~  341 (440)
                        +.++.+|+.+.+.|+..+..  ....++..+.....  ..++.++++.+.+.|+++....|..+.-
T Consensus       158 l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~~~~kik~~~yp~lGl  225 (297)
T PF13170_consen  158 LAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNALKKNGVKIKYMHYPTLGL  225 (297)
T ss_pred             HHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCccccccccHHHH
Confidence              45677778888877655432  33334433322222  3477888888888888877777665543

>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=94.38  E-value=0.38  Score=36.38  Aligned_cols=72  Identities=18%  Similarity=0.024  Sum_probs=48.4

Q ss_pred             HhcCCHHHHHHHHhcC-CCCccHhHHHH-HHHHHHhcCChhHHHHHHHHHHhcCCCCCchHHHHHHHHHhccCh
Q 039362          344 SRAGQVTEAYEFICQM-PLEPTASMLGS-LLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKRW  415 (440)
Q Consensus       344 ~~~~~~~~a~~~~~~~-~~~p~~~~~~~-l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  415 (440)
                      ...++.+++..++..+ -++|....... -...+...|++.+|..+++.+.+..|..+..-..++.++...|+.
T Consensus        21 l~~~~~~D~e~lL~ALrvLRP~~~e~~~~~~~l~i~r~~w~dA~rlLr~l~~~~~~~p~~kALlA~CL~~~~D~   94 (160)
T PF09613_consen   21 LRLGDPDDAEALLDALRVLRPEFPELDLFDGWLHIVRGDWDDALRLLRELEERAPGFPYAKALLALCLYALGDP   94 (160)
T ss_pred             HccCChHHHHHHHHHHHHhCCCchHHHHHHHHHHHHhCCHHHHHHHHHHHhccCCCChHHHHHHHHHHHHcCCh
Confidence            4677888888888887 45565443322 233456788888888888888777777765555556666555553

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=94.36  E-value=0.35  Score=35.90  Aligned_cols=70  Identities=14%  Similarity=0.016  Sum_probs=36.4

Q ss_pred             hcCCHHHHHHHHhcC-CCCccHhHHHH-HHHHHHhcCChhHHHHHHHHHHhcCCCCCchHHHHHHHHHhccC
Q 039362          345 RAGQVTEAYEFICQM-PLEPTASMLGS-LLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKR  414 (440)
Q Consensus       345 ~~~~~~~a~~~~~~~-~~~p~~~~~~~-l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  414 (440)
                      ..++.+++..++..+ -+.|+..-... -...+...|++++|.++++.+.+..+..+..-..++.++.-.|+
T Consensus        22 ~~~d~~D~e~lLdALrvLrP~~~e~d~~dg~l~i~rg~w~eA~rvlr~l~~~~~~~p~~kAL~A~CL~al~D   93 (153)
T TIGR02561        22 RSADPYDAQAMLDALRVLRPNLKELDMFDGWLLIARGNYDEAARILRELLSSAGAPPYGKALLALCLNAKGD   93 (153)
T ss_pred             hcCCHHHHHHHHHHHHHhCCCccccchhHHHHHHHcCCHHHHHHHHHhhhccCCCchHHHHHHHHHHHhcCC
Confidence            456666666666666 33443322211 12234566677777777776666555544333444444444444

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>PRK11619 lytic murein transglycosylase; Provisional

Probab=94.36  E-value=5.4  Score=38.73  Aligned_cols=115  Identities=9%  Similarity=0.019  Sum_probs=60.4

Q ss_pred             cCChHHHHHHHHHHHHcC-CCccHh--hHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHH
Q 039362          276 HGFVKESLELFTEMQIVG-ITPDEI--TFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEA  352 (440)
Q Consensus       276 ~~~~~~a~~~~~~m~~~~-~~p~~~--~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  352 (440)
                      ..+.+.|..++....... ..+...  ....+.......+...++...+.......  .+......-++.-...++++.+
T Consensus       254 r~d~~~A~~~~~~~~~~~~~~~~~~~~~~~~lA~~~a~~~~~~~a~~w~~~~~~~~--~~~~~~e~r~r~Al~~~dw~~~  331 (644)
T PRK11619        254 RQDAENARLMIPSLVRAQKLNEDQRQELRDIVAWRLMGNDVTDEQAKWRDDVIMRS--QSTSLLERRVRMALGTGDRRGL  331 (644)
T ss_pred             HhCHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHhccCCHHHHHHHHhccccc--CCcHHHHHHHHHHHHccCHHHH
Confidence            345677777777764432 222221  23333333333322455555555543321  2444445555555677888887


Q ss_pred             HHHHhcCCC-CccHhHHHH-HHHHHHhcCChhHHHHHHHHHH
Q 039362          353 YEFICQMPL-EPTASMLGS-LLTGCMNHGKLDLAEIVGKKLV  392 (440)
Q Consensus       353 ~~~~~~~~~-~p~~~~~~~-l~~~~~~~g~~~~a~~~~~~~~  392 (440)
                      ...+..|.. ..+..-|.. +.+++...|+.++|..+|+++.
T Consensus       332 ~~~i~~L~~~~~~~~rw~YW~aRa~~~~g~~~~A~~~~~~~a  373 (644)
T PRK11619        332 NTWLARLPMEAKEKDEWRYWQADLLLEQGRKAEAEEILRQLM  373 (644)
T ss_pred             HHHHHhcCHhhccCHhhHHHHHHHHHHcCCHHHHHHHHHHHh
Confidence            777777721 111122222 4455556788888888888763

>PRK15180 Vi polysaccharide biosynthesis protein TviD; Provisional

Probab=94.20  E-value=1  Score=40.46  Aligned_cols=124  Identities=15%  Similarity=0.139  Sum_probs=65.1

Q ss_pred             HhcCChHHHHHH-HHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHH
Q 039362          274 AMHGFVKESLEL-FTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEA  352 (440)
Q Consensus       274 ~~~~~~~~a~~~-~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  352 (440)
                      ...|+.-.|-+- +.-+....-.|+..-+...  .+...|+++.+.+.+...... +.....+...+++...+.|++++|
T Consensus       300 ~~~gd~~aas~~~~~~lr~~~~~p~~i~l~~~--i~~~lg~ye~~~~~~s~~~~~-~~s~~~~~~~~~r~~~~l~r~~~a  376 (831)
T PRK15180        300 LADGDIIAASQQLFAALRNQQQDPVLIQLRSV--IFSHLGYYEQAYQDISDVEKI-IGTTDSTLRCRLRSLHGLARWREA  376 (831)
T ss_pred             hhccCHHHHHHHHHHHHHhCCCCchhhHHHHH--HHHHhhhHHHHHHHhhchhhh-hcCCchHHHHHHHhhhchhhHHHH
Confidence            344555554433 3333333223443333222  344567777777666655443 223445566667777777777777


Q ss_pred             HHHHhcC-CCC-ccHhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCCc
Q 039362          353 YEFICQM-PLE-PTASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDG  400 (440)
Q Consensus       353 ~~~~~~~-~~~-p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~  400 (440)
                      ...-..| +.+ -+..+...........|-++++...|++...++|+...
T Consensus       377 ~s~a~~~l~~eie~~ei~~iaa~sa~~l~~~d~~~~~wk~~~~~~~~~~~  426 (831)
T PRK15180        377 LSTAEMMLSNEIEDEEVLTVAAGSADALQLFDKSYHYWKRVLLLNPETQS  426 (831)
T ss_pred             HHHHHHHhccccCChhheeeecccHHHHhHHHHHHHHHHHHhccCChhcc
Confidence            7766665 211 12333333333344566667777777777777655443

>PF07035 Mic1: Colon cancer-associated protein Mic1-like; InterPro: IPR009755 This entry represents the C terminus (approximately 160 residues) of a number of proteins that resemble colon cancer-associated protein Mic1

Probab=94.06  E-value=2.1  Score=32.93  Aligned_cols=133  Identities=8%  Similarity=0.067  Sum_probs=72.2

Q ss_pred             HHHHHHHHHcCCCCCcchHHHHHHHhhchhcHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhcC--CHHHHHHHhhCCC
Q 039362           48 ISLFVKMLRAGVSPDHLTYPFLAKASGRLAKRELAVAVHAQIAKTGYESDLFISNSLIHMYGSCG--DIVYAREVFDGMP  125 (440)
Q Consensus        48 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g--~~~~a~~~~~~~~  125 (440)
                      .+.++.+.+.+++|+...+..+++.+.+.|++.....    +++.++-+|.......+-.+....  -..-|..++.++.
T Consensus        14 lEYirSl~~~~i~~~~~L~~lli~lLi~~~~~~~L~q----llq~~Vi~DSk~lA~~LLs~~~~~~~~~Ql~lDMLkRL~   89 (167)
T PF07035_consen   14 LEYIRSLNQHNIPVQHELYELLIDLLIRNGQFSQLHQ----LLQYHVIPDSKPLACQLLSLGNQYPPAYQLGLDMLKRLG   89 (167)
T ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHH----HHhhcccCCcHHHHHHHHHhHccChHHHHHHHHHHHHhh
Confidence            3445555666777777777777777777777654433    444445555444433332222211  1223333443332


Q ss_pred             CCchhhHHHHHHHHHhcCChHHHHHHHhhCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 039362          126 TKMSVSWNSMLDGYAKCGEMNMARQVFELMPERNVVSWSALIDGYVKCGDYKEALVIFEEMRD  188 (440)
Q Consensus       126 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  188 (440)
                          ..+..++..+...|++-+|.+..+.....+......++.+..+.++...-..+++-...
T Consensus        90 ----~~~~~iievLL~~g~vl~ALr~ar~~~~~~~~~~~~fLeAA~~~~D~~lf~~V~~ff~~  148 (167)
T PF07035_consen   90 ----TAYEEIIEVLLSKGQVLEALRYARQYHKVDSVPARKFLEAAANSNDDQLFYAVFRFFEE  148 (167)
T ss_pred             ----hhHHHHHHHHHhCCCHHHHHHHHHHcCCcccCCHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence                24455666677777777777777665444444445555666666665555555544443

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=93.95  E-value=6.1  Score=37.87  Aligned_cols=310  Identities=15%  Similarity=0.046  Sum_probs=166.8

Q ss_pred             CCCCcHHHHH-----HHHHHHHhcCCHHHHHHHhhCCCCCc---hhhHHHHHHHHHhcC---ChHHHHHHHhhCCC--Cc
Q 039362           93 GYESDLFISN-----SLIHMYGSCGDIVYAREVFDGMPTKM---SVSWNSMLDGYAKCG---EMNMARQVFELMPE--RN  159 (440)
Q Consensus        93 ~~~~~~~~~~-----~l~~~~~~~g~~~~a~~~~~~~~~~~---~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~--~~  159 (440)
                      |++.+..-|.     .+++-+...+.+..|+++-..+..|.   ...|......+.+..   +.+-+..+-+++..  ..
T Consensus       427 gIplT~~qy~~l~~~~vi~Rl~~r~~Y~vaIQva~~l~~p~~~~~~Vl~~Wa~~kI~~~d~~d~~vld~I~~kls~~~~~  506 (829)
T KOG2280|consen  427 GIPLTHEQYRHLSEEVVIDRLVDRHLYSVAIQVAKLLNLPESQGDRVLLEWARRKIKQSDKMDEEVLDKIDEKLSAKLTP  506 (829)
T ss_pred             CccccHHHHhhhchhhhhHHHHhcchhHHHHHHHHHhCCccccccHHHHHHHHHHHhccCccchHHHHHHHHHhcccCCC
Confidence            5555544443     34556666778888888877776554   445555555555542   23334444444544  34


Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC----CHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHH
Q 039362          160 VVSWSALIDGYVKCGDYKEALVIFEEMRDVGSKA----NEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTS  235 (440)
Q Consensus       160 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  235 (440)
                      ..+|..++......|+.+-|..+++.=...+...    +..-+...+.-+...|+.+-...++-.+...-   +      
T Consensus       507 ~iSy~~iA~~Ay~~GR~~LA~kLle~E~~~~~qV~lLL~m~~~~~AL~kaies~d~~Li~~Vllhlk~~~---~------  577 (829)
T KOG2280|consen  507 GISYAAIARRAYQEGRFELARKLLELEPRSGEQVPLLLKMKDSSLALKKAIESGDTDLIIQVLLHLKNKL---N------  577 (829)
T ss_pred             ceeHHHHHHHHHhcCcHHHHHHHHhcCCCccchhHHHhccchHHHHHHHHHhcCCchhHHHHHHHHHHHH---H------
Confidence            5677777777778888888887765422211000    11122333344444555555554444443221   0      


Q ss_pred             HHHHHHhcCCHHHHHHHHhhhhhcCCchhhHHHHHHHHHhcCChHHHHHHH--HHH----HHcCCCccHhhHHHHHHHHH
Q 039362          236 LIDMYAKCGAIKEALIVFHGVEKHQSDVLIWNAMIGGLAMHGFVKESLELF--TEM----QIVGITPDEITFLGLLSACA  309 (440)
Q Consensus       236 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~--~~m----~~~~~~p~~~~~~~l~~~~~  309 (440)
                      ....+....+...|..+|....+.....    .+-..|-...+.. +...|  +..    ...|..|+..   ....++.
T Consensus       578 ~s~l~~~l~~~p~a~~lY~~~~r~~~~~----~l~d~y~q~dn~~-~~a~~~~q~~~~~~~~~~r~~~lk---~~a~~~a  649 (829)
T KOG2280|consen  578 RSSLFMTLRNQPLALSLYRQFMRHQDRA----TLYDFYNQDDNHQ-ALASFHLQASYAAETIEGRIPALK---TAANAFA  649 (829)
T ss_pred             HHHHHHHHHhchhhhHHHHHHHHhhchh----hhhhhhhcccchh-hhhhhhhhhhhhhhhhcccchhHH---HHHHHHh
Confidence            0111112223344444444443211100    0111122222222 22111  110    1122233332   3333444


Q ss_pred             cCCC----------hHHHHHHHHHHhhc-CCCCCcchHHHHHHHHHhcCCHHHHHHHHhcCCCCccHhHHHHHHHHHHhc
Q 039362          310 HGGL----------VMEAWYFFKSLGKR-GMVPKSEHYACMVDALSRAGQVTEAYEFICQMPLEPTASMLGSLLTGCMNH  378 (440)
Q Consensus       310 ~~~~----------~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~p~~~~~~~l~~~~~~~  378 (440)
                      +...          ..+-+.+.+.+... |..-...+.+--+..+...|+..+|.++-.+.+ -||...|..-+.+++..
T Consensus       650 ~sk~~s~e~ka~ed~~kLl~lQ~~Le~q~~~~f~dlSl~dTv~~li~~g~~k~a~ql~~~Fk-ipdKr~~wLk~~aLa~~  728 (829)
T KOG2280|consen  650 KSKEKSFEAKALEDQMKLLKLQRTLEDQFGGSFVDLSLHDTVTTLILIGQNKRAEQLKSDFK-IPDKRLWWLKLTALADI  728 (829)
T ss_pred             hhhhhhhHHHHHHHHHHHHHHHHHHHHHhccccccCcHHHHHHHHHHccchHHHHHHHHhcC-CcchhhHHHHHHHHHhh
Confidence            3322          12222333333333 333445566667778889999999999999997 47888888888899999


Q ss_pred             CChhHHHHHHHHHHhcCCCCCchHHHHHHHHHhccChHHHHHHHHHH
Q 039362          379 GKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEARTTREAM  425 (440)
Q Consensus       379 g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  425 (440)
                      +++++-+++.+..     .+|.-|.-...+|.+.|+.++|.+++-+.
T Consensus       729 ~kweeLekfAksk-----ksPIGy~PFVe~c~~~~n~~EA~KYiprv  770 (829)
T KOG2280|consen  729 KKWEELEKFAKSK-----KSPIGYLPFVEACLKQGNKDEAKKYIPRV  770 (829)
T ss_pred             hhHHHHHHHHhcc-----CCCCCchhHHHHHHhcccHHHHhhhhhcc
Confidence            9998776665543     23567888899999999999999998654

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=93.85  E-value=0.79  Score=39.14  Aligned_cols=88  Identities=13%  Similarity=-0.034  Sum_probs=50.8

Q ss_pred             HHHHhcCCHHHHHHHHhhhhhcCC-chhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHH
Q 039362          238 DMYAKCGAIKEALIVFHGVEKHQS-DVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVME  316 (440)
Q Consensus       238 ~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~  316 (440)
                      .-|.+.|.+++|+++|.+.....| |.+++..-..+|.+...+..|+.-.......+ ..-...|..-+.+-...|...+
T Consensus       105 N~yFKQgKy~EAIDCYs~~ia~~P~NpV~~~NRA~AYlk~K~FA~AE~DC~~AiaLd-~~Y~KAYSRR~~AR~~Lg~~~E  183 (536)
T KOG4648|consen  105 NTYFKQGKYEEAIDCYSTAIAVYPHNPVYHINRALAYLKQKSFAQAEEDCEAAIALD-KLYVKAYSRRMQARESLGNNME  183 (536)
T ss_pred             hhhhhccchhHHHHHhhhhhccCCCCccchhhHHHHHHHHHHHHHHHHhHHHHHHhh-HHHHHHHHHHHHHHHHHhhHHH
Confidence            456677777777777777666666 67777777777777777776666555554332 1111233333333333455555


Q ss_pred             HHHHHHHHhh
Q 039362          317 AWYFFKSLGK  326 (440)
Q Consensus       317 a~~~~~~~~~  326 (440)
                      |.+-++..++
T Consensus       184 AKkD~E~vL~  193 (536)
T KOG4648|consen  184 AKKDCETVLA  193 (536)
T ss_pred             HHHhHHHHHh
Confidence            5555555554

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=93.76  E-value=0.15  Score=43.23  Aligned_cols=95  Identities=13%  Similarity=-0.024  Sum_probs=68.3

Q ss_pred             HHHHHHcCCChHHHHHHHHHHhhcCCCC-CcchHHHHHHHHHhcCCHHHHHHHHhcC-CCC-ccHhHHHHHHHHHHhcCC
Q 039362          304 LLSACAHGGLVMEAWYFFKSLGKRGMVP-KSEHYACMVDALSRAGQVTEAYEFICQM-PLE-PTASMLGSLLTGCMNHGK  380 (440)
Q Consensus       304 l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~-p~~~~~~~l~~~~~~~g~  380 (440)
                      -..-|.+.|.+++|+..|...+..  .| +..++..-..+|.+..++..|..-.... .+. .-...|..-+.+-...|.
T Consensus       103 ~GN~yFKQgKy~EAIDCYs~~ia~--~P~NpV~~~NRA~AYlk~K~FA~AE~DC~~AiaLd~~Y~KAYSRR~~AR~~Lg~  180 (536)
T KOG4648|consen  103 RGNTYFKQGKYEEAIDCYSTAIAV--YPHNPVYHINRALAYLKQKSFAQAEEDCEAAIALDKLYVKAYSRRMQARESLGN  180 (536)
T ss_pred             hhhhhhhccchhHHHHHhhhhhcc--CCCCccchhhHHHHHHHHHHHHHHHHhHHHHHHhhHHHHHHHHHHHHHHHHHhh
Confidence            345678889999999999887774  35 7788888888999999888877766655 211 112334444444445778


Q ss_pred             hhHHHHHHHHHHhcCCCCCc
Q 039362          381 LDLAEIVGKKLVELQPDHDG  400 (440)
Q Consensus       381 ~~~a~~~~~~~~~~~~~~~~  400 (440)
                      ..+|.+-++.++++.|.+..
T Consensus       181 ~~EAKkD~E~vL~LEP~~~E  200 (536)
T KOG4648|consen  181 NMEAKKDCETVLALEPKNIE  200 (536)
T ss_pred             HHHHHHhHHHHHhhCcccHH
Confidence            88899999999999988643

>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A

Probab=93.70  E-value=0.15  Score=26.60  Aligned_cols=27  Identities=26%  Similarity=0.241  Sum_probs=13.1

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHhcCCC
Q 039362          371 LLTGCMNHGKLDLAEIVGKKLVELQPD  397 (440)
Q Consensus       371 l~~~~~~~g~~~~a~~~~~~~~~~~~~  397 (440)
                      +..++.+.|++++|.+.|+++++..|+
T Consensus         6 ~a~~~~~~g~~~~A~~~~~~~~~~~P~   32 (33)
T PF13174_consen    6 LARCYYKLGDYDEAIEYFQRLIKRYPD   32 (33)
T ss_dssp             HHHHHHHHCHHHHHHHHHHHHHHHSTT
T ss_pred             HHHHHHHccCHHHHHHHHHHHHHHCcC
Confidence            334444445555555555555544443

>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=93.40  E-value=2.9  Score=32.84  Aligned_cols=61  Identities=10%  Similarity=0.098  Sum_probs=30.0

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHcCCCccH--hhHHHHHHHHHcCCChHHHHHHHHHHhh
Q 039362          266 WNAMIGGLAMHGFVKESLELFTEMQIVGITPDE--ITFLGLLSACAHGGLVMEAWYFFKSLGK  326 (440)
Q Consensus       266 ~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~  326 (440)
                      +..+...|++.|+.+.|.+.+.++.+....|..  ..+..+++.....+++..+...+.++..
T Consensus        39 ~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~  101 (177)
T PF10602_consen   39 LEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAES  101 (177)
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            444555555555555555555555544333322  1234444444555555555555555443

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.

>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=93.39  E-value=2.6  Score=33.08  Aligned_cols=63  Identities=21%  Similarity=0.302  Sum_probs=38.4

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCH--HHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 039362          161 VSWSALIDGYVKCGDYKEALVIFEEMRDVGSKANE--VTLVSVLCACAHLGALDQGRMMLRYMID  223 (440)
Q Consensus       161 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~  223 (440)
                      ..+..+...|.+.|+.+.|++.|.++.+....+..  ..+..++......+++..+...+.++..
T Consensus        37 ~~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~  101 (177)
T PF10602_consen   37 MALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAES  101 (177)
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            34566667777777777777777776655433332  3445566666666677666666665543

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.

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=93.30  E-value=8.6  Score=37.49  Aligned_cols=136  Identities=10%  Similarity=0.071  Sum_probs=91.5

Q ss_pred             CChhhHHHHhhhc-CCCChHHHHHHHHHHHccCChhhHHHHHHHHHHcCCCCCcchHHHHHHHhhchhcHHHHHHHHHHH
Q 039362           11 GNIDYSCKVLSHL-SNPRIFYWNTVIRGYSKSKNPNKSISLFVKMLRAGVSPDHLTYPFLAKASGRLAKRELAVAVHAQI   89 (440)
Q Consensus        11 g~~~~A~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~   89 (440)
                      |++++|...|-+- ..-++   .-+|.-|........-...++.+.+.|+. +...-..|+.+|.+.++.++-.+..+..
T Consensus       382 gdf~~A~~qYI~tI~~le~---s~Vi~kfLdaq~IknLt~YLe~L~~~gla-~~dhttlLLncYiKlkd~~kL~efI~~~  457 (933)
T KOG2114|consen  382 GDFDEATDQYIETIGFLEP---SEVIKKFLDAQRIKNLTSYLEALHKKGLA-NSDHTTLLLNCYIKLKDVEKLTEFISKC  457 (933)
T ss_pred             CCHHHHHHHHHHHcccCCh---HHHHHHhcCHHHHHHHHHHHHHHHHcccc-cchhHHHHHHHHHHhcchHHHHHHHhcC
Confidence            8999998877543 32111   12456667777777888889999998864 4445578899999999999877766554


Q ss_pred             HHcCCCCcHHHHHHHHHHHHhcCCHHHHHHHhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHhhCCC
Q 039362           90 AKTGYESDLFISNSLIHMYGSCGDIVYAREVFDGMPTKMSVSWNSMLDGYAKCGEMNMARQVFELMPE  157 (440)
Q Consensus        90 ~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  157 (440)
                      - .|.-  ..-....+..+.+.+-.++|..+-..... +......   .+...+++++|++.+..++-
T Consensus       458 ~-~g~~--~fd~e~al~Ilr~snyl~~a~~LA~k~~~-he~vl~i---lle~~~ny~eAl~yi~slp~  518 (933)
T KOG2114|consen  458 D-KGEW--FFDVETALEILRKSNYLDEAELLATKFKK-HEWVLDI---LLEDLHNYEEALRYISSLPI  518 (933)
T ss_pred             C-Ccce--eeeHHHHHHHHHHhChHHHHHHHHHHhcc-CHHHHHH---HHHHhcCHHHHHHHHhcCCH
Confidence            3 2211  11134566777778888888776655544 3333333   34467889999999999874

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=93.23  E-value=0.24  Score=26.15  Aligned_cols=27  Identities=22%  Similarity=0.233  Sum_probs=11.8

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHhhhhhc
Q 039362          233 QTSLIDMYAKCGAIKEALIVFHGVEKH  259 (440)
Q Consensus       233 ~~~l~~~~~~~g~~~~A~~~~~~~~~~  259 (440)
                      |..+..+|...|++++|+..|+++.+.
T Consensus         4 ~~~~g~~~~~~~~~~~A~~~~~~al~~   30 (34)
T PF00515_consen    4 YYNLGNAYFQLGDYEEALEYYQRALEL   30 (34)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCchHHHHHHHHHHHH
Confidence            334444444444444444444444433

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 ....

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=93.00  E-value=0.19  Score=26.74  Aligned_cols=23  Identities=22%  Similarity=0.301  Sum_probs=11.6

Q ss_pred             CCchhhHHHHHHHHHhcCCHHHH
Q 039362          227 SLTLPLQTSLIDMYAKCGAIKEA  249 (440)
Q Consensus       227 ~~~~~~~~~l~~~~~~~g~~~~A  249 (440)
                      |.+...|..+..+|...|++++|
T Consensus        10 P~n~~a~~nla~~~~~~g~~~~A   32 (34)
T PF13431_consen   10 PNNAEAYNNLANLYLNQGDYEEA   32 (34)
T ss_pred             CCCHHHHHHHHHHHHHCcCHHhh
Confidence            44445555555555555555544

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=92.95  E-value=0.27  Score=25.82  Aligned_cols=29  Identities=21%  Similarity=0.172  Sum_probs=13.7

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHhhhhhcCC
Q 039362          233 QTSLIDMYAKCGAIKEALIVFHGVEKHQS  261 (440)
Q Consensus       233 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  261 (440)
                      +..+..+|...|++++|++.|++.....|
T Consensus         4 ~~~lg~~~~~~~~~~~A~~~~~~al~l~p   32 (34)
T PF07719_consen    4 WYYLGQAYYQLGNYEEAIEYFEKALELDP   32 (34)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHHHHHST
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHHHCc
Confidence            34444555555555555555555444333

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 ....

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=92.94  E-value=3  Score=31.18  Aligned_cols=52  Identities=12%  Similarity=-0.073  Sum_probs=24.7

Q ss_pred             cCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhcC
Q 039362          208 LGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQ  260 (440)
Q Consensus       208 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  260 (440)
                      .++++++..+++.+.-.. |.....-..-...+...|++++|.++|+++.+..
T Consensus        23 ~~d~~D~e~lLdALrvLr-P~~~e~d~~dg~l~i~rg~w~eA~rvlr~l~~~~   74 (153)
T TIGR02561        23 SADPYDAQAMLDALRVLR-PNLKELDMFDGWLLIARGNYDEAARILRELLSSA   74 (153)
T ss_pred             cCCHHHHHHHHHHHHHhC-CCccccchhHHHHHHHcCCHHHHHHHHHhhhccC
Confidence            455555555555554332 2222222223334455566666666666655433

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=92.80  E-value=0.29  Score=27.26  Aligned_cols=27  Identities=19%  Similarity=0.214  Sum_probs=14.6

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHHh
Q 039362          367 MLGSLLTGCMNHGKLDLAEIVGKKLVE  393 (440)
Q Consensus       367 ~~~~l~~~~~~~g~~~~a~~~~~~~~~  393 (440)
                      +++.+...|...|++++|..+++++.+
T Consensus         4 ~~~~la~~~~~~g~~~~A~~~~~~al~   30 (42)
T PF13374_consen    4 ALNNLANAYRAQGRYEEALELLEEALE   30 (42)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhhcchhhHHHHHHHH
Confidence            445555555555566555555555544

>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=92.50  E-value=20  Score=39.67  Aligned_cols=313  Identities=14%  Similarity=0.051  Sum_probs=161.4

Q ss_pred             HHHHHhhchhcHHHHHHHHHHHHHcC--CCCcHHHHHHHHHHHHhcCCHHHHHHHhhC-CCCCchhhHHHHHHHHHhcCC
Q 039362           68 FLAKASGRLAKRELAVAVHAQIAKTG--YESDLFISNSLIHMYGSCGDIVYAREVFDG-MPTKMSVSWNSMLDGYAKCGE  144 (440)
Q Consensus        68 ~l~~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~-~~~~~~~~~~~l~~~~~~~~~  144 (440)
                      .+..+-.+.+.+.+|...++.-....  -......+..+...|+..+++|...-+... ..+++   ...-+......|+
T Consensus      1388 tLa~aSfrc~~y~RalmylEs~~~~ek~~~~~e~l~fllq~lY~~i~dpDgV~Gv~~~r~a~~s---l~~qil~~e~~g~ 1464 (2382)
T KOG0890|consen 1388 TLARASFRCKAYARALMYLESHRSTEKEKETEEALYFLLQNLYGSIHDPDGVEGVSARRFADPS---LYQQILEHEASGN 1464 (2382)
T ss_pred             HHHHHHHhhHHHHHHHHHHHHhccccchhHHHHHHHHHHHHHHHhcCCcchhhhHHHHhhcCcc---HHHHHHHHHhhcc
Confidence            34445567788899998888831111  111234455566689999999888777663 33333   2334556678899


Q ss_pred             hHHHHHHHhhCCC--Cc-hhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHH-HHHHHHHHhcCChHHHHHHHHH
Q 039362          145 MNMARQVFELMPE--RN-VVSWSALIDGYVKCGDYKEALVIFEEMRDVGSKANEVTL-VSVLCACAHLGALDQGRMMLRY  220 (440)
Q Consensus       145 ~~~a~~~~~~~~~--~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-~~l~~~~~~~~~~~~a~~~~~~  220 (440)
                      +..|...|+.+.+  |+ ..+++-++......|.++.+.-..+-..... .+....+ +.-+.+--+.++++.....+. 
T Consensus      1465 ~~da~~Cye~~~q~~p~~~~~~~g~l~sml~~~~l~t~i~~~dg~~~~~-se~~~~~~s~~~eaaW~l~qwD~~e~~l~- 1542 (2382)
T KOG0890|consen 1465 WADAAACYERLIQKDPDKEKHHSGVLKSMLAIQHLSTEILHLDGLIINR-SEEVDELNSLGVEAAWRLSQWDLLESYLS- 1542 (2382)
T ss_pred             HHHHHHHHHHhhcCCCccccchhhHHHhhhcccchhHHHhhhcchhhcc-CHHHHHHHHHHHHHHhhhcchhhhhhhhh-
Confidence            9999999999986  33 5678888888888888888877666554432 2222222 223334456777777766655 


Q ss_pred             HHHcCCCCchhhHHHHHHHHHhcCCHH--HHHHHHhhhhhc-----------CCchhhHHHHHHHHHhcCChHHHHHHHH
Q 039362          221 MIDKGLSLTLPLQTSLIDMYAKCGAIK--EALIVFHGVEKH-----------QSDVLIWNAMIGGLAMHGFVKESLELFT  287 (440)
Q Consensus       221 ~~~~~~~~~~~~~~~l~~~~~~~g~~~--~A~~~~~~~~~~-----------~~~~~~~~~l~~~~~~~~~~~~a~~~~~  287 (440)
                        +.+. .+..+. .++....+..+-+  .-.+..+.+.+.           +.-...|..++....-..- +.-   .+
T Consensus      1543 --~~n~-e~w~~~-~~g~~ll~~~~kD~~~~~~~i~~~r~~~i~~lsa~s~~~Sy~~~Y~~~~kLH~l~el-~~~---~~ 1614 (2382)
T KOG0890|consen 1543 --DRNI-EYWSVE-SIGKLLLRNKKKDEIATLDLIENSRELVIENLSACSIEGSYVRSYEILMKLHLLLEL-ENS---IE 1614 (2382)
T ss_pred             --cccc-cchhHH-HHHHHHHhhcccchhhHHHHHHHHHHHhhhhHHHhhccchHHHHHHHHHHHHHHHHH-HHH---HH
Confidence              1111 111111 1222222221111  111111111110           1011233333333221111 000   01


Q ss_pred             HHHHcCCCccHhh------HHHHHHHHHcCCChHHHHHHHHHHh-hcCCCC-----CcchHHHHHHHHHhcCCHHHHHHH
Q 039362          288 EMQIVGITPDEIT------FLGLLSACAHGGLVMEAWYFFKSLG-KRGMVP-----KSEHYACMVDALSRAGQVTEAYEF  355 (440)
Q Consensus       288 ~m~~~~~~p~~~~------~~~l~~~~~~~~~~~~a~~~~~~~~-~~~~~~-----~~~~~~~l~~~~~~~~~~~~a~~~  355 (440)
                      ..  .++.++..+      |..-+.--....+..+-+--+++.. .....|     -..+|....+...+.|+++.|...
T Consensus      1615 ~l--~~~s~~~~s~~~sd~W~~Rl~~tq~s~~~~epILa~RRs~l~~~~~~~~~~~~ge~wLqsAriaR~aG~~q~A~na 1692 (2382)
T KOG0890|consen 1615 EL--KKVSYDEDSANNSDNWKNRLERTQPSFRIKEPILAFRRSMLDLRMRSNLKSRLGECWLQSARIARLAGHLQRAQNA 1692 (2382)
T ss_pred             Hh--hccCccccccccchhHHHHHHHhchhHHHHhHHHHHHHHHHHHhccccccchhHHHHHHHHHHHHhcccHHHHHHH
Confidence            10  112222211      1111111111111111111122111 111122     235677778888889999999887


Q ss_pred             HhcCCCCccHhHHHHHHHHHHhcCChhHHHHHHHHHHhcC
Q 039362          356 ICQMPLEPTASMLGSLLTGCMNHGKLDLAEIVGKKLVELQ  395 (440)
Q Consensus       356 ~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  395 (440)
                      +-.++..--+..+...++-..+.|+...|+.++++.++.+
T Consensus      1693 ll~A~e~r~~~i~~E~AK~lW~~gd~~~Al~~Lq~~l~~~ 1732 (2382)
T KOG0890|consen 1693 LLNAKESRLPEIVLERAKLLWQTGDELNALSVLQEILSKN 1732 (2382)
T ss_pred             HHhhhhcccchHHHHHHHHHHhhccHHHHHHHHHHHHHhh
Confidence            7666322244555667777889999999999999999765

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=92.47  E-value=6.5  Score=33.91  Aligned_cols=131  Identities=14%  Similarity=0.201  Sum_probs=76.8

Q ss_pred             HHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHh--cC----ChHHHHHHHHHHHHcCCC---CchhhHHHHHHHHHhcCCH
Q 039362          176 YKEALVIFEEMRDVGSKANEVTLVSVLCACAH--LG----ALDQGRMMLRYMIDKGLS---LTLPLQTSLIDMYAKCGAI  246 (440)
Q Consensus       176 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~--~~----~~~~a~~~~~~~~~~~~~---~~~~~~~~l~~~~~~~g~~  246 (440)
                      +++.+.+++.|.+.|+..+..+|.+.......  ..    ....+..+++.|.+...-   ++...+..++..  ..++.
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            44566778888888888887776654433332  22    355778889999876422   222333333332  33333


Q ss_pred             ----HHHHHHHhhhhhc---CCc-hhhHHHHHHHHHhcCC--hHHHHHHHHHHHHcCCCccHhhHHHHHHHH
Q 039362          247 ----KEALIVFHGVEKH---QSD-VLIWNAMIGGLAMHGF--VKESLELFTEMQIVGITPDEITFLGLLSAC  308 (440)
Q Consensus       247 ----~~A~~~~~~~~~~---~~~-~~~~~~l~~~~~~~~~--~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~  308 (440)
                          +.+..+|+.+.+.   ..| ......++........  ..++.++++.+.+.|+++....|..+.-..
T Consensus       156 e~l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~~~~kik~~~yp~lGlLa  227 (297)
T PF13170_consen  156 EELAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNALKKNGVKIKYMHYPTLGLLA  227 (297)
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCccccccccHHHHHH
Confidence                4556667766653   122 3333333333322222  457899999999999998887776654433

>PF00637 Clathrin: Region in Clathrin and VPS; InterPro: IPR000547 Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=92.44  E-value=0.21  Score=37.68  Aligned_cols=84  Identities=12%  Similarity=0.041  Sum_probs=45.3

Q ss_pred             HHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCH
Q 039362          270 IGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQV  349 (440)
Q Consensus       270 ~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  349 (440)
                      +..+.+.+.+.....+++.+...+...+....+.++..|++.+..+....+++..       +..-...+++.+.+.|.+
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            4445555666666666666665544444556666666777666556655555411       111223445555566666


Q ss_pred             HHHHHHHhcCC
Q 039362          350 TEAYEFICQMP  360 (440)
Q Consensus       350 ~~a~~~~~~~~  360 (440)
                      ++|.-++.+++
T Consensus        87 ~~a~~Ly~~~~   97 (143)
T PF00637_consen   87 EEAVYLYSKLG   97 (143)
T ss_dssp             HHHHHHHHCCT
T ss_pred             HHHHHHHHHcc
Confidence            66666666553

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.

>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]

Probab=92.34  E-value=11  Score=36.39  Aligned_cols=68  Identities=13%  Similarity=0.280  Sum_probs=39.6

Q ss_pred             HHHHHHHHHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcCCCCccHhHHHHHHHHHHhcC
Q 039362          301 FLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQMPLEPTASMLGSLLTGCMNHG  379 (440)
Q Consensus       301 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~p~~~~~~~l~~~~~~~g  379 (440)
                      ....+..|.+.|-+++-.-++.+|-.        ++.+|.-.--+.++.++|+++.++-.   |...|..|+.-+...-
T Consensus       637 lekA~eiC~q~~~~~E~VYlLgrmGn--------~k~AL~lII~el~die~AIefvKeq~---D~eLWe~LI~~~ldkP  704 (846)
T KOG2066|consen  637 LEKALEICSQKNFYEELVYLLGRMGN--------AKEALKLIINELRDIEKAIEFVKEQD---DSELWEDLINYSLDKP  704 (846)
T ss_pred             HHHHHHHHHhhCcHHHHHHHHHhhcc--------hHHHHHHHHHHhhCHHHHHHHHHhcC---CHHHHHHHHHHhhcCc
Confidence            44555566666666666666665532        23333333445667777777776543   6677777776555443

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=92.20  E-value=1.9  Score=36.49  Aligned_cols=101  Identities=16%  Similarity=0.132  Sum_probs=62.0

Q ss_pred             CCCCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhc-----CCchhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHh
Q 039362          225 GLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKH-----QSDVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEI  299 (440)
Q Consensus       225 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-----~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~  299 (440)
                      |.+....+...++..-....+++.+...+-++...     .|+. +-.+.+..+ -.-++++++.++..=++.|+-||..
T Consensus        59 g~~~s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~-~~~~~irll-lky~pq~~i~~l~npIqYGiF~dqf  136 (418)
T KOG4570|consen   59 GLPVSSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNW-TIHTWIRLL-LKYDPQKAIYTLVNPIQYGIFPDQF  136 (418)
T ss_pred             CCCcceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhccc-cHHHHHHHH-HccChHHHHHHHhCcchhccccchh
Confidence            33444444555555555566677777766666542     1111 111222222 2235667777777777788888888


Q ss_pred             hHHHHHHHHHcCCChHHHHHHHHHHhhc
Q 039362          300 TFLGLLSACAHGGLVMEAWYFFKSLGKR  327 (440)
Q Consensus       300 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~  327 (440)
                      +++.+++.+.+.+++.+|..+...|...
T Consensus       137 ~~c~l~D~flk~~n~~~aa~vvt~~~~q  164 (418)
T KOG4570|consen  137 TFCLLMDSFLKKENYKDAASVVTEVMMQ  164 (418)
T ss_pred             hHHHHHHHHHhcccHHHHHHHHHHHHHH
Confidence            8888888888888888887777766654

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=92.02  E-value=2.7  Score=33.09  Aligned_cols=93  Identities=16%  Similarity=0.148  Sum_probs=56.1

Q ss_pred             HHHHhcCCHHHHHHHHHHHHhcCCCCCH-----HHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHh
Q 039362          168 DGYVKCGDYKEALVIFEEMRDVGSKANE-----VTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAK  242 (440)
Q Consensus       168 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~-----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  242 (440)
                      .-+.+.|++++|..-|...+..- ++..     ..|..-..++.+.+.++.|+.-..+.++.+ +........-..+|.+
T Consensus       103 N~~F~ngdyeeA~skY~~Ale~c-p~~~~e~rsIly~Nraaa~iKl~k~e~aI~dcsKaiel~-pty~kAl~RRAeayek  180 (271)
T KOG4234|consen  103 NELFKNGDYEEANSKYQEALESC-PSTSTEERSILYSNRAAALIKLRKWESAIEDCSKAIELN-PTYEKALERRAEAYEK  180 (271)
T ss_pred             HHhhhcccHHHHHHHHHHHHHhC-ccccHHHHHHHHhhhHHHHHHhhhHHHHHHHHHhhHhcC-chhHHHHHHHHHHHHh
Confidence            44566777777777777776652 2221     234444445666777777777666666665 3333333444556666


Q ss_pred             cCCHHHHHHHHhhhhhcCCc
Q 039362          243 CGAIKEALIVFHGVEKHQSD  262 (440)
Q Consensus       243 ~g~~~~A~~~~~~~~~~~~~  262 (440)
                      ...+++|+.-|+++.+..|.
T Consensus       181 ~ek~eealeDyKki~E~dPs  200 (271)
T KOG4234|consen  181 MEKYEEALEDYKKILESDPS  200 (271)
T ss_pred             hhhHHHHHHHHHHHHHhCcc
Confidence            77777777777777666554

>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]

Probab=92.00  E-value=12  Score=36.13  Aligned_cols=101  Identities=11%  Similarity=0.044  Sum_probs=66.1

Q ss_pred             HHHhhchhcHHHHHHHHHHHHHcCCCC---cHHHHHHHHHHHHhcCCHHHHHHHhhCCCCCchhhHHHHHHHHHhcCChH
Q 039362           70 AKASGRLAKRELAVAVHAQIAKTGYES---DLFISNSLIHMYGSCGDIVYAREVFDGMPTKMSVSWNSMLDGYAKCGEMN  146 (440)
Q Consensus        70 ~~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  146 (440)
                      ++.+.+.+.+++|+.+.+.....  .|   -..+....+..+...|+++.|-...-.|...+..-|..-+..+...++..
T Consensus       363 i~Wll~~k~yeeAl~~~k~~~~~--~~~~~i~kv~~~yI~HLl~~~~y~~Aas~~p~m~gn~~~eWe~~V~~f~e~~~l~  440 (846)
T KOG2066|consen  363 IDWLLEKKKYEEALDAAKASIGN--EERFVIKKVGKTYIDHLLFEGKYDEAASLCPKMLGNNAAEWELWVFKFAELDQLT  440 (846)
T ss_pred             HHHHHHhhHHHHHHHHHHhccCC--ccccchHHHHHHHHHHHHhcchHHHHHhhhHHHhcchHHHHHHHHHHhccccccc
Confidence            45566777888888766554332  22   23456677788888889999888888888777777777777776666655


Q ss_pred             HHHHHHhhCCC-CchhhHHHHHHHHHh
Q 039362          147 MARQVFELMPE-RNVVSWSALIDGYVK  172 (440)
Q Consensus       147 ~a~~~~~~~~~-~~~~~~~~l~~~~~~  172 (440)
                      ....++-.-.. -+...|..++..+..
T Consensus       441 ~Ia~~lPt~~~rL~p~vYemvLve~L~  467 (846)
T KOG2066|consen  441 DIAPYLPTGPPRLKPLVYEMVLVEFLA  467 (846)
T ss_pred             hhhccCCCCCcccCchHHHHHHHHHHH
Confidence            44433322221 245677777777666

>KOG1586 consensus Protein required for fusion of vesicles in vesicular transport, alpha-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=91.98  E-value=5.8  Score=32.25  Aligned_cols=16  Identities=25%  Similarity=0.412  Sum_probs=9.0

Q ss_pred             HhcCCHHHHHHHHHHH
Q 039362          171 VKCGDYKEALVIFEEM  186 (440)
Q Consensus       171 ~~~~~~~~a~~~~~~~  186 (440)
                      .-.+++++|.++|.+.
T Consensus        25 gg~~k~eeAadl~~~A   40 (288)
T KOG1586|consen   25 GGSNKYEEAAELYERA   40 (288)
T ss_pred             CCCcchHHHHHHHHHH
Confidence            3344666666666553

>KOG2396 consensus HAT (Half-A-TPR) repeat-containing protein [General function prediction only]

Probab=91.73  E-value=10  Score=34.63  Aligned_cols=98  Identities=7%  Similarity=-0.057  Sum_probs=71.7

Q ss_pred             CCCcchH-HHHHHHHHhcCCHHHHHHHHhcC-CC-CccHhHHHHHHHHHH--hcCChhHHHHHHHHHHhcCCCCCchHHH
Q 039362          330 VPKSEHY-ACMVDALSRAGQVTEAYEFICQM-PL-EPTASMLGSLLTGCM--NHGKLDLAEIVGKKLVELQPDHDGRYVG  404 (440)
Q Consensus       330 ~~~~~~~-~~l~~~~~~~~~~~~a~~~~~~~-~~-~p~~~~~~~l~~~~~--~~g~~~~a~~~~~~~~~~~~~~~~~~~~  404 (440)
                      .|+..++ +.+++.+.+.|-..+|...+..+ .. .|+...+..++..-.  ..-+...+..+|+.+......++..|..
T Consensus       456 ~~~~~tl~s~~l~~~~e~~~~~~ark~y~~l~~lpp~sl~l~r~miq~e~~~~sc~l~~~r~~yd~a~~~fg~d~~lw~~  535 (568)
T KOG2396|consen  456 GADSVTLKSKYLDWAYESGGYKKARKVYKSLQELPPFSLDLFRKMIQFEKEQESCNLANIREYYDRALREFGADSDLWMD  535 (568)
T ss_pred             CCceeehhHHHHHHHHHhcchHHHHHHHHHHHhCCCccHHHHHHHHHHHhhHhhcCchHHHHHHHHHHHHhCCChHHHHH
Confidence            4555554 56778888899999999999988 22 346677777776432  2334778889999888766577778888


Q ss_pred             HHHHHHhccChHHHHHHHHHHHh
Q 039362          405 LSNVYAIFKRWDEARTTREAMET  427 (440)
Q Consensus       405 l~~~~~~~g~~~~A~~~~~~~~~  427 (440)
                      ....-...|+.+.+-.++.+..+
T Consensus       536 y~~~e~~~g~~en~~~~~~ra~k  558 (568)
T KOG2396|consen  536 YMKEELPLGRPENCGQIYWRAMK  558 (568)
T ss_pred             HHHhhccCCCcccccHHHHHHHH
Confidence            87777788988888877766544

>PF07721 TPR_4: Tetratricopeptide repeat; InterPro: IPR011717 This entry includes tetratricopeptide-like repeats not detected by the IPR001440 from INTERPRO, IPR013105 from INTERPRO and IPR011716 from INTERPRO models

Probab=91.72  E-value=0.25  Score=24.26  Aligned_cols=23  Identities=17%  Similarity=0.034  Sum_probs=15.3

Q ss_pred             hHHHHHHHHHhccChHHHHHHHH
Q 039362          401 RYVGLSNVYAIFKRWDEARTTRE  423 (440)
Q Consensus       401 ~~~~l~~~~~~~g~~~~A~~~~~  423 (440)
                      ....++.++...|++++|..+++
T Consensus         3 a~~~la~~~~~~G~~~eA~~~l~   25 (26)
T PF07721_consen    3 ARLALARALLAQGDPDEAERLLR   25 (26)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHh
Confidence            44566677777777777776664

The tetratricopeptide repeat (TPR) motif is a protein-protein interaction module found in multiple copies in a number of functionally different proteins that facilitates specific interactions with a partner protein(s) [].; GO: 0042802 identical protein binding

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=91.66  E-value=6  Score=31.77  Aligned_cols=179  Identities=15%  Similarity=-0.017  Sum_probs=98.4

Q ss_pred             cCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCCc-hhhHHHHHHHHHhcCChHHHHHHH
Q 039362          208 LGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQSD-VLIWNAMIGGLAMHGFVKESLELF  286 (440)
Q Consensus       208 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~  286 (440)
                      .|-..-|.--|.+.+... |.-+.+||.|.-.+...|+++.|.+.|+...+..|. ..+...-.-++.--|++.-|.+-+
T Consensus        78 lGL~~LAR~DftQaLai~-P~m~~vfNyLG~Yl~~a~~fdaa~eaFds~~ELDp~y~Ya~lNRgi~~YY~gR~~LAq~d~  156 (297)
T COG4785          78 LGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAHLNRGIALYYGGRYKLAQDDL  156 (297)
T ss_pred             hhHHHHHhhhhhhhhhcC-CCcHHHHHHHHHHHHhcccchHHHHHhhhHhccCCcchHHHhccceeeeecCchHhhHHHH
Confidence            344444444444444433 444667888888888888999998888888876663 233322233344457888887777


Q ss_pred             HHHHHcCCCccHh--hHHHHHHHHHcCCChHHHHHHH-HHHhhcCCCCCcchHHH-HHHHHHhcCCHHHHHHHHhcCCC-
Q 039362          287 TEMQIVGITPDEI--TFLGLLSACAHGGLVMEAWYFF-KSLGKRGMVPKSEHYAC-MVDALSRAGQVTEAYEFICQMPL-  361 (440)
Q Consensus       287 ~~m~~~~~~p~~~--~~~~l~~~~~~~~~~~~a~~~~-~~~~~~~~~~~~~~~~~-l~~~~~~~~~~~~a~~~~~~~~~-  361 (440)
                      ...-+.. +.|+.  .|..+.   ...-++.+|..-+ ++...    .|..-|.. ++..|...=..+.+.+-...... 
T Consensus       157 ~~fYQ~D-~~DPfR~LWLYl~---E~k~dP~~A~tnL~qR~~~----~d~e~WG~~iV~~yLgkiS~e~l~~~~~a~a~~  228 (297)
T COG4785         157 LAFYQDD-PNDPFRSLWLYLN---EQKLDPKQAKTNLKQRAEK----SDKEQWGWNIVEFYLGKISEETLMERLKADATD  228 (297)
T ss_pred             HHHHhcC-CCChHHHHHHHHH---HhhCCHHHHHHHHHHHHHh----ccHhhhhHHHHHHHHhhccHHHHHHHHHhhccc
Confidence            7766553 22321  222221   2233555555433 33322    23333332 33333322223333333332210 


Q ss_pred             -----CccHhHHHHHHHHHHhcCChhHHHHHHHHHHhcC
Q 039362          362 -----EPTASMLGSLLTGCMNHGKLDLAEIVGKKLVELQ  395 (440)
Q Consensus       362 -----~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  395 (440)
                           .--..||-.+.+-+...|+.++|..+|+-++..+
T Consensus       229 n~~~Ae~LTEtyFYL~K~~l~~G~~~~A~~LfKLaiann  267 (297)
T COG4785         229 NTSLAEHLTETYFYLGKYYLSLGDLDEATALFKLAVANN  267 (297)
T ss_pred             hHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHh
Confidence                 0123567778888889999999999999887765

>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A

Probab=91.55  E-value=0.32  Score=25.28  Aligned_cols=29  Identities=21%  Similarity=0.186  Sum_probs=25.3

Q ss_pred             hHHHHHHHHHhccChHHHHHHHHHHHhcC
Q 039362          401 RYVGLSNVYAIFKRWDEARTTREAMETRG  429 (440)
Q Consensus       401 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  429 (440)
                      ++..++.++.+.|++++|.+.|+++++.-
T Consensus         2 a~~~~a~~~~~~g~~~~A~~~~~~~~~~~   30 (33)
T PF13174_consen    2 ALYRLARCYYKLGDYDEAIEYFQRLIKRY   30 (33)
T ss_dssp             HHHHHHHHHHHHCHHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHHC
Confidence            45678899999999999999999998764

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=91.49  E-value=0.39  Score=26.69  Aligned_cols=28  Identities=25%  Similarity=0.223  Sum_probs=24.4

Q ss_pred             hHHHHHHHHHhccChHHHHHHHHHHHhc
Q 039362          401 RYVGLSNVYAIFKRWDEARTTREAMETR  428 (440)
Q Consensus       401 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~  428 (440)
                      ++..++.+|...|++++|..++++....
T Consensus         4 ~~~~la~~~~~~g~~~~A~~~~~~al~~   31 (42)
T PF13374_consen    4 ALNNLANAYRAQGRYEEALELLEEALEI   31 (42)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhhcchhhHHHHHHHHH
Confidence            6788999999999999999999998764

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=91.36  E-value=19  Score=36.90  Aligned_cols=136  Identities=15%  Similarity=0.189  Sum_probs=81.0

Q ss_pred             HHHHhcCCHHHHHHHhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHhhCCCCchhhHHHHHHHHHhcCCHHHHHHHHHH
Q 039362          106 HMYGSCGDIVYAREVFDGMPTKMSVSWNSMLDGYAKCGEMNMARQVFELMPERNVVSWSALIDGYVKCGDYKEALVIFEE  185 (440)
Q Consensus       106 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  185 (440)
                      +.-.+.|.+..|..++..-.+.-...|.+....+...+.+++|--+|+..-+.     ...+.+|...|+|++|+.+-.+
T Consensus       916 n~I~kh~Ly~~aL~ly~~~~e~~k~i~~~ya~hL~~~~~~~~Aal~Ye~~Gkl-----ekAl~a~~~~~dWr~~l~~a~q  990 (1265)
T KOG1920|consen  916 NYIKKHGLYDEALALYKPDSEKQKVIYEAYADHLREELMSDEAALMYERCGKL-----EKALKAYKECGDWREALSLAAQ  990 (1265)
T ss_pred             HHHHhcccchhhhheeccCHHHHHHHHHHHHHHHHHhccccHHHHHHHHhccH-----HHHHHHHHHhccHHHHHHHHHh
Confidence            33344555556655554333333445666666667777777777777665431     2235677778888888887776


Q ss_pred             HHhcCCCCCHHH--HHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHhhhh
Q 039362          186 MRDVGSKANEVT--LVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVE  257 (440)
Q Consensus       186 ~~~~~~~~~~~~--~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  257 (440)
                      +..   ..+...  -..|+.-+...+++-+|-++..+....   |     ...+..|++...+++|.++-....
T Consensus       991 l~~---~~de~~~~a~~L~s~L~e~~kh~eAa~il~e~~sd---~-----~~av~ll~ka~~~~eAlrva~~~~ 1053 (1265)
T KOG1920|consen  991 LSE---GKDELVILAEELVSRLVEQRKHYEAAKILLEYLSD---P-----EEAVALLCKAKEWEEALRVASKAK 1053 (1265)
T ss_pred             hcC---CHHHHHHHHHHHHHHHHHcccchhHHHHHHHHhcC---H-----HHHHHHHhhHhHHHHHHHHHHhcc
Confidence            632   112211  245666777778888888877766532   1     234455666677778777665544

>PRK10941 hypothetical protein; Provisional

Probab=91.30  E-value=1.4  Score=37.18  Aligned_cols=64  Identities=16%  Similarity=0.179  Sum_probs=53.4

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCCchHHHHHHHHHhccChHHHHHHHHHHHhcCC
Q 039362          367 MLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEARTTREAMETRGV  430 (440)
Q Consensus       367 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  430 (440)
                      ..+.+-.++.+.++++.|..+.+.++...|+++.-+.--+..|.+.|.+..|..=++..++...
T Consensus       183 ml~nLK~~~~~~~~~~~AL~~~e~ll~l~P~dp~e~RDRGll~~qL~c~~~A~~DL~~fl~~~P  246 (269)
T PRK10941        183 LLDTLKAALMEEKQMELALRASEALLQFDPEDPYEIRDRGLIYAQLDCEHVALSDLSYFVEQCP  246 (269)
T ss_pred             HHHHHHHHHHHcCcHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCcHHHHHHHHHHHHhCC
Confidence            3456666788899999999999999999999988888888889999999999888888877654

>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=90.93  E-value=6.3  Score=30.65  Aligned_cols=24  Identities=8%  Similarity=0.149  Sum_probs=9.3

Q ss_pred             HHHHHHhhhhhcCCchhhHHHHHH
Q 039362          248 EALIVFHGVEKHQSDVLIWNAMIG  271 (440)
Q Consensus       248 ~A~~~~~~~~~~~~~~~~~~~l~~  271 (440)
                      +|...|++.....|+...|+.-+.
T Consensus        98 kA~~~FqkAv~~~P~ne~Y~ksLe  121 (186)
T PF06552_consen   98 KATEYFQKAVDEDPNNELYRKSLE  121 (186)
T ss_dssp             HHHHHHHHHHHH-TT-HHHHHHHH
T ss_pred             HHHHHHHHHHhcCCCcHHHHHHHH
Confidence            333333443334444444444443

Most mitochondrial proteins are encoded by the nuclear genome, and are synthesised in the cytosol. TOM20 is a general import receptor that binds to mitochondrial pre-sequences in the early step of protein import into the mitochondria [].; GO: 0045040 protein import into mitochondrial outer membrane, 0005742 mitochondrial outer membrane translocase complex; PDB: 1ZU2_A.

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=90.87  E-value=8.6  Score=36.00  Aligned_cols=100  Identities=16%  Similarity=0.099  Sum_probs=48.7

Q ss_pred             hcCCHHHHHHHHhhhhhcCCchhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHH
Q 039362          242 KCGAIKEALIVFHGVEKHQSDVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFF  321 (440)
Q Consensus       242 ~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~  321 (440)
                      +.|+++.|.++..+..    +..-|..|..+..+.+++..|.+.|.....         |..|+-.+...|+.+....+-
T Consensus       649 ~lgrl~iA~~la~e~~----s~~Kw~~Lg~~al~~~~l~lA~EC~~~a~d---------~~~LlLl~t~~g~~~~l~~la  715 (794)
T KOG0276|consen  649 KLGRLDIAFDLAVEAN----SEVKWRQLGDAALSAGELPLASECFLRARD---------LGSLLLLYTSSGNAEGLAVLA  715 (794)
T ss_pred             hcCcHHHHHHHHHhhc----chHHHHHHHHHHhhcccchhHHHHHHhhcc---------hhhhhhhhhhcCChhHHHHHH
Confidence            3455555544443322    344556666666666666666666555432         233444444445544433333


Q ss_pred             HHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcCC
Q 039362          322 KSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQMP  360 (440)
Q Consensus       322 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  360 (440)
                      ....+.|..      |....+|...|+++++.+++.+-+
T Consensus       716 ~~~~~~g~~------N~AF~~~~l~g~~~~C~~lLi~t~  748 (794)
T KOG0276|consen  716 SLAKKQGKN------NLAFLAYFLSGDYEECLELLISTQ  748 (794)
T ss_pred             HHHHhhccc------chHHHHHHHcCCHHHHHHHHHhcC
Confidence            333343311      122234555666666666666553

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=90.79  E-value=2.6  Score=28.66  Aligned_cols=45  Identities=11%  Similarity=0.099  Sum_probs=26.0

Q ss_pred             HHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHH
Q 039362          178 EALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMI  222 (440)
Q Consensus       178 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  222 (440)
                      ++.+-++.+....+.|++......+++|.+.+++..|.++++-+.
T Consensus        25 e~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK   69 (103)
T cd00923          25 ELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIK   69 (103)
T ss_pred             HHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            344444555555556666666666666666666666666666554

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.

>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]

Probab=90.73  E-value=1.1  Score=35.74  Aligned_cols=63  Identities=14%  Similarity=0.065  Sum_probs=37.8

Q ss_pred             HHHHHHHHhcCCHHHHHHHHhcC-CCCccH-hHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCC
Q 039362          337 ACMVDALSRAGQVTEAYEFICQM-PLEPTA-SMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHD  399 (440)
Q Consensus       337 ~~l~~~~~~~~~~~~a~~~~~~~-~~~p~~-~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~  399 (440)
                      +.-+..+.+.+...+++...++- +-+|.. ..-..+++.++-.|++++|..-++-.-++.|...
T Consensus         5 ~~t~seLL~~~sL~dai~~a~~qVkakPtda~~RhflfqLlcvaGdw~kAl~Ql~l~a~l~p~~t   69 (273)
T COG4455           5 RDTISELLDDNSLQDAIGLARDQVKAKPTDAGGRHFLFQLLCVAGDWEKALAQLNLAATLSPQDT   69 (273)
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHhcCCccccchhHHHHHHhhcchHHHHHHHHHHHhhcCcccc
Confidence            34455566666677776666554 444533 3334455666677777777777766666666544

>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=90.70  E-value=3.3  Score=32.85  Aligned_cols=68  Identities=15%  Similarity=-0.002  Sum_probs=33.6

Q ss_pred             HHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhcCCHHHHHHHhhCCC-------CCchhhHHHHHHHHHhcCChHHH
Q 039362           80 ELAVAVHAQIAKTGYESDLFISNSLIHMYGSCGDIVYAREVFDGMP-------TKMSVSWNSMLDGYAKCGEMNMA  148 (440)
Q Consensus        80 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~-------~~~~~~~~~l~~~~~~~~~~~~a  148 (440)
                      +.|.+.|-.+...+.--++.....|...|. ..|.+++..++....       ..|+..+.+|+..+.+.|+++.|
T Consensus       123 ~~A~~~fL~~E~~~~l~t~elq~aLAtyY~-krD~~Kt~~ll~~~L~l~~~~~~~n~eil~sLas~~~~~~~~e~A  197 (203)
T PF11207_consen  123 QEALRRFLQLEGTPELETAELQYALATYYT-KRDPEKTIQLLLRALELSNPDDNFNPEILKSLASIYQKLKNYEQA  197 (203)
T ss_pred             HHHHHHHHHHcCCCCCCCHHHHHHHHHHHH-ccCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhcchhhh
Confidence            335555555544443334444444444444 344555555444332       23455555666666666665554

>PF13181 TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_C 2KCV_A 2KCL_A 3FP3_A 3LCA_A 3FP4_A 3FP2_A 1W3B_B 1ELW_A

Probab=90.58  E-value=0.65  Score=24.36  Aligned_cols=29  Identities=21%  Similarity=0.283  Sum_probs=25.9

Q ss_pred             hHHHHHHHHHhccChHHHHHHHHHHHhcC
Q 039362          401 RYVGLSNVYAIFKRWDEARTTREAMETRG  429 (440)
Q Consensus       401 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  429 (440)
                      +|..++..|...|++++|.+.|++.++..
T Consensus         3 ~~~~lg~~y~~~~~~~~A~~~~~~a~~~~   31 (34)
T PF13181_consen    3 AYYNLGKIYEQLGDYEEALEYFEKALELN   31 (34)
T ss_dssp             HHHHHHHHHHHTTSHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence            67889999999999999999999987743

...

>smart00028 TPR Tetratricopeptide repeats

Probab=90.49  E-value=0.6  Score=23.58  Aligned_cols=27  Identities=30%  Similarity=0.305  Sum_probs=12.4

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHhcCC
Q 039362          370 SLLTGCMNHGKLDLAEIVGKKLVELQP  396 (440)
Q Consensus       370 ~l~~~~~~~g~~~~a~~~~~~~~~~~~  396 (440)
                      .+...+...|+++.|...+++.++..|
T Consensus         6 ~~a~~~~~~~~~~~a~~~~~~~~~~~~   32 (34)
T smart00028        6 NLGNAYLKLGDYDEALEYYEKALELDP   32 (34)
T ss_pred             HHHHHHHHHhhHHHHHHHHHHHHccCC
Confidence            344444444444444444444444433

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.

>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=90.43  E-value=0.72  Score=35.59  Aligned_cols=108  Identities=15%  Similarity=0.117  Sum_probs=51.2

Q ss_pred             hHHHHHHHHHHhhcCCCCCcchHHHHHHHHH---hcCCHHHHHHHHh-------cC-CCCccH-hHHHHHHHHHHhcC--
Q 039362          314 VMEAWYFFKSLGKRGMVPKSEHYACMVDALS---RAGQVTEAYEFIC-------QM-PLEPTA-SMLGSLLTGCMNHG--  379 (440)
Q Consensus       314 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~---~~~~~~~a~~~~~-------~~-~~~p~~-~~~~~l~~~~~~~g--  379 (440)
                      ++.|.+.++.....+ +.|...++.-..++.   +.....++.++++       +. .+.|+. .++..+..++...+  
T Consensus         7 FE~ark~aea~y~~n-P~DadnL~~WG~ALLELAqfk~g~es~~miedAisK~eeAL~I~P~~hdAlw~lGnA~ts~A~l   85 (186)
T PF06552_consen    7 FEHARKKAEAAYAKN-PLDADNLTNWGGALLELAQFKQGPESKKMIEDAISKFEEALKINPNKHDALWCLGNAYTSLAFL   85 (186)
T ss_dssp             HHHHHHHHHHHHHH--TT-HHHHHHHHHHHHHHHHHS-HHHHHHHHHHHHHHHHHHHHH-TT-HHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhC-cHhHHHHHHHHHHHHHHHhccCcchHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHHhh
Confidence            445555555544433 234444443333333   2333333433333       33 456654 56666666665433  


Q ss_pred             ---------ChhHHHHHHHHHHhcCCCCCchHHHHHHHHHh-ccChHHHHHHHHHHHhcCC
Q 039362          380 ---------KLDLAEIVGKKLVELQPDHDGRYVGLSNVYAI-FKRWDEARTTREAMETRGV  430 (440)
Q Consensus       380 ---------~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~-~g~~~~A~~~~~~~~~~~~  430 (440)
                               .+++|...|+++.+.+|.+        ..|.+ ..-..+|-++..++.+++.
T Consensus        86 ~~d~~~A~~~F~kA~~~FqkAv~~~P~n--------e~Y~ksLe~~~kap~lh~e~~~~~~  138 (186)
T PF06552_consen   86 TPDTAEAEEYFEKATEYFQKAVDEDPNN--------ELYRKSLEMAAKAPELHMEIHKQGL  138 (186)
T ss_dssp             ---HHHHHHHHHHHHHHHHHHHHH-TT---------HHHHHHHHHHHTHHHHHHHHHHSSS
T ss_pred             cCChHHHHHHHHHHHHHHHHHHhcCCCc--------HHHHHHHHHHHhhHHHHHHHHHHHh
Confidence                     2455666666666677775        44433 3444566666666666543

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.

>TIGR03504 FimV_Cterm FimV C-terminal domain

Probab=90.41  E-value=0.54  Score=26.73  Aligned_cols=26  Identities=23%  Similarity=0.312  Sum_probs=20.4

Q ss_pred             HHHHHHHhccChHHHHHHHHHHHhcC
Q 039362          404 GLSNVYAIFKRWDEARTTREAMETRG  429 (440)
Q Consensus       404 ~l~~~~~~~g~~~~A~~~~~~~~~~~  429 (440)
                      .++.+|...|+.+.|+++++++...|
T Consensus         4 dLA~ayie~Gd~e~Ar~lL~evl~~~   29 (44)
T TIGR03504         4 DLARAYIEMGDLEGARELLEEVIEEG   29 (44)
T ss_pred             HHHHHHHHcCChHHHHHHHHHHHHcC
Confidence            56778888888888888888887654

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.

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=90.28  E-value=2.5  Score=28.74  Aligned_cols=60  Identities=13%  Similarity=0.098  Sum_probs=38.5

Q ss_pred             hHHHHHHHHHHcCCCCCcchHHHHHHHhhchhcHHHHHHHHHHHHHcCCCCcHHHHHHHHH
Q 039362           46 KSISLFVKMLRAGVSPDHLTYPFLAKASGRLAKRELAVAVHAQIAKTGYESDLFISNSLIH  106 (440)
Q Consensus        46 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  106 (440)
                      ++.+-++.+....+.|++....+.+++|.+.+++..|.++++-++... ..+...|..++.
T Consensus        25 e~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK~K~-~~~~~~y~~~lq   84 (103)
T cd00923          25 ELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIKDKC-GAHKEIYPYILQ   84 (103)
T ss_pred             HHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHc-cCchhhHHHHHH
Confidence            455566666666677777777777777777777777777777666431 223345554443

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.

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=90.21  E-value=20  Score=35.39  Aligned_cols=218  Identities=15%  Similarity=0.027  Sum_probs=117.6

Q ss_pred             HHHhcCChHHHHHHHHHHHHcCCCCchh-------hHHHH-HHHHHhcCCHHHHHHHHhhhhhcC------CchhhHHHH
Q 039362          204 ACAHLGALDQGRMMLRYMIDKGLSLTLP-------LQTSL-IDMYAKCGAIKEALIVFHGVEKHQ------SDVLIWNAM  269 (440)
Q Consensus       204 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~-------~~~~l-~~~~~~~g~~~~A~~~~~~~~~~~------~~~~~~~~l  269 (440)
                      ......++++|..++.++...-..|+..       .++.+ .......|++++|.++.+.....-      +....+..+
T Consensus       424 ~~~s~~r~~ea~~li~~l~~~l~~~~~~~~~~l~ae~~aL~a~val~~~~~e~a~~lar~al~~L~~~~~~~r~~~~sv~  503 (894)
T COG2909         424 LLASQHRLAEAETLIARLEHFLKAPMHSRQGDLLAEFQALRAQVALNRGDPEEAEDLARLALVQLPEAAYRSRIVALSVL  503 (894)
T ss_pred             HHHHccChHHHHHHHHHHHHHhCcCcccchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhcccccchhhhhhhhhh
Confidence            3456678888888888875543222211       22222 223345688899988888776542      245667777


Q ss_pred             HHHHHhcCChHHHHHHHHHHHHcCCCccHhhHH---HH--HHHHHcCCCh--HHHHHHHHHHhhc--CCCC----CcchH
Q 039362          270 IGGLAMHGFVKESLELFTEMQIVGITPDEITFL---GL--LSACAHGGLV--MEAWYFFKSLGKR--GMVP----KSEHY  336 (440)
Q Consensus       270 ~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~---~l--~~~~~~~~~~--~~a~~~~~~~~~~--~~~~----~~~~~  336 (440)
                      ..+..-.|++++|..+..+..+..-.-+...+.   .+  ...+...|..  .+.+..+......  +-+|    -..++
T Consensus       504 ~~a~~~~G~~~~Al~~~~~a~~~a~~~~~~~l~~~~~~~~s~il~~qGq~~~a~~~~~~~~~~~q~l~q~~~~~f~~~~r  583 (894)
T COG2909         504 GEAAHIRGELTQALALMQQAEQMARQHDVYHLALWSLLQQSEILEAQGQVARAEQEKAFNLIREQHLEQKPRHEFLVRIR  583 (894)
T ss_pred             hHHHHHhchHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHhhhcccchhHHHHH
Confidence            888888999999998887765542222332222   22  1223455633  3333334333332  1111    11233


Q ss_pred             HHHHHHHHhcCCHHHHHHHHhc----C-CCCccH--hH--HHHHHHHHHhcCChhHHHHHHHHHHhcCCCC-Cc-hHHHH
Q 039362          337 ACMVDALSRAGQVTEAYEFICQ----M-PLEPTA--SM--LGSLLTGCMNHGKLDLAEIVGKKLVELQPDH-DG-RYVGL  405 (440)
Q Consensus       337 ~~l~~~~~~~~~~~~a~~~~~~----~-~~~p~~--~~--~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~-~~-~~~~l  405 (440)
                      ..+..++.+   .+.+..-...    . ...|..  ..  +..|+......|+.++|...++++......+ +. .|.+.
T Consensus       584 ~~ll~~~~r---~~~~~~ear~~~~~~~~~~~~~~~~~~~~~~LA~l~~~~Gdl~~A~~~l~~~~~l~~~~~~~~~~~a~  660 (894)
T COG2909         584 AQLLRAWLR---LDLAEAEARLGIEVGSVYTPQPLLSRLALSMLAELEFLRGDLDKALAQLDELERLLLNGQYHVDYLAA  660 (894)
T ss_pred             HHHHHHHHH---HhhhhHHhhhcchhhhhcccchhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhcCCCCCchHHHH
Confidence            344444444   3333222222    1 112222  22  2367777888999999999999988865322 22 22221


Q ss_pred             ---HH--HHHhccChHHHHHHHHH
Q 039362          406 ---SN--VYAIFKRWDEARTTREA  424 (440)
Q Consensus       406 ---~~--~~~~~g~~~~A~~~~~~  424 (440)
                         +.  .....|+.++|.....+
T Consensus       661 ~~~v~~~lwl~qg~~~~a~~~l~~  684 (894)
T COG2909         661 AYKVKLILWLAQGDKELAAEWLLK  684 (894)
T ss_pred             HHHhhHHHhcccCCHHHHHHHHHh
Confidence               11  22346888888777655

>KOG1464 consensus COP9 signalosome, subunit CSN2 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=90.18  E-value=9.8  Score=31.67  Aligned_cols=48  Identities=8%  Similarity=0.115  Sum_probs=22.2

Q ss_pred             CChHHHHHHHHHHHHcCCCCc---hhhHHHHHHHHHhcCCHHHHHHHHhhh
Q 039362          209 GALDQGRMMLRYMIDKGLSLT---LPLQTSLIDMYAKCGAIKEALIVFHGV  256 (440)
Q Consensus       209 ~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~g~~~~A~~~~~~~  256 (440)
                      ..+++|..-|++.++..-...   -.....++..+.+.|++++.+..|.++
T Consensus        41 ~~p~~Al~sF~kVlelEgEKgeWGFKALKQmiKI~f~l~~~~eMm~~Y~ql   91 (440)
T KOG1464|consen   41 DEPKEALSSFQKVLELEGEKGEWGFKALKQMIKINFRLGNYKEMMERYKQL   91 (440)
T ss_pred             cCHHHHHHHHHHHHhcccccchhHHHHHHHHHHHHhccccHHHHHHHHHHH
Confidence            355566666655554421111   122233444555555555555555444

>KOG1550 consensus Extracellular protein SEL-1 and related proteins [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=90.14  E-value=18  Score=34.65  Aligned_cols=275  Identities=11%  Similarity=0.029  Sum_probs=152.0

Q ss_pred             hHHHHHHHhhCCC-CchhhHHHHHHH-----HHhcCCHHHHHHHHHHHHh-------cCCCCCHHHHHHHHHHHHhcC--
Q 039362          145 MNMARQVFELMPE-RNVVSWSALIDG-----YVKCGDYKEALVIFEEMRD-------VGSKANEVTLVSVLCACAHLG--  209 (440)
Q Consensus       145 ~~~a~~~~~~~~~-~~~~~~~~l~~~-----~~~~~~~~~a~~~~~~~~~-------~~~~~~~~~~~~l~~~~~~~~--  209 (440)
                      ...+.+.++...+ .+......+..+     +....+.+.|+.+|+....       .|   .......+..+|.+..  
T Consensus       228 ~~~a~~~~~~~a~~g~~~a~~~~g~~y~~G~~g~~~d~e~a~~~l~~aa~~~~~~a~~~---~~~a~~~lg~~Y~~g~~~  304 (552)
T KOG1550|consen  228 LSEAFKYYREAAKLGHSEAQYALGICYLAGTYGVTQDLESAIEYLKLAAESFKKAATKG---LPPAQYGLGRLYLQGLGV  304 (552)
T ss_pred             hhHHHHHHHHHHhhcchHHHHHHHHHHhhccccccccHHHHHHHHHHHHHHHHHHHhhc---CCccccHHHHHHhcCCCC
Confidence            4567777777654 233333333322     3355688999999988866       44   2224445566665532  


Q ss_pred             ---ChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHh-cCCHHHHHHHHhhhhhcCCchhhHHHHH-HHH--HhcCChHHH
Q 039362          210 ---ALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAK-CGAIKEALIVFHGVEKHQSDVLIWNAMI-GGL--AMHGFVKES  282 (440)
Q Consensus       210 ---~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~g~~~~A~~~~~~~~~~~~~~~~~~~l~-~~~--~~~~~~~~a  282 (440)
                         +...|..++....+.| .|+.......+..... ..+...|..+|....+.......+..-+ -..  ....+...|
T Consensus       305 ~~~d~~~A~~~~~~aA~~g-~~~a~~~lg~~~~~g~~~~d~~~A~~yy~~Aa~~G~~~A~~~la~~y~~G~gv~r~~~~A  383 (552)
T KOG1550|consen  305 EKIDYEKALKLYTKAAELG-NPDAQYLLGVLYETGTKERDYRRAFEYYSLAAKAGHILAIYRLALCYELGLGVERNLELA  383 (552)
T ss_pred             ccccHHHHHHHHHHHHhcC-CchHHHHHHHHHHcCCccccHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCcCCCHHHH
Confidence               5677888888888887 4555444333322222 2467889999988875433332222221 111  134577888


Q ss_pred             HHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHH---Hh----cCCHHHHHHH
Q 039362          283 LELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDAL---SR----AGQVTEAYEF  355 (440)
Q Consensus       283 ~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~---~~----~~~~~~a~~~  355 (440)
                      ..++++.-+.| .|...--...+..+.. +.++.+...+..+.+.|.......-..++...   ..    ..+.+.+...
T Consensus       384 ~~~~k~aA~~g-~~~A~~~~~~~~~~g~-~~~~~~~~~~~~~a~~g~~~~q~~a~~l~~~~~~~~~~~~~~~~~~~~~~~  461 (552)
T KOG1550|consen  384 FAYYKKAAEKG-NPSAAYLLGAFYEYGV-GRYDTALALYLYLAELGYEVAQSNAAYLLDQSEEDLFSRGVISTLERAFSL  461 (552)
T ss_pred             HHHHHHHHHcc-ChhhHHHHHHHHHHcc-ccccHHHHHHHHHHHhhhhHHhhHHHHHHHhccccccccccccchhHHHHH
Confidence            99999888887 4443222233333434 66777766666666655332111111111111   11    1244556666


Q ss_pred             HhcCCCCccHhHHHHHHHHHHh----cCChhHHHHHHHHHHhcCCCCCchHHHHHHHHHhc-c--ChHHHHHHHHHHHhc
Q 039362          356 ICQMPLEPTASMLGSLLTGCMN----HGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIF-K--RWDEARTTREAMETR  428 (440)
Q Consensus       356 ~~~~~~~p~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~-g--~~~~A~~~~~~~~~~  428 (440)
                      +.+....-+......+...|..    ..+++.|...+.++...+   ......++.++-.. |  .+..|.+++++..+.
T Consensus       462 ~~~a~~~g~~~a~~~lgd~y~~g~g~~~d~~~a~~~y~~a~~~~---~~~~~nlg~~~e~g~g~~~~~~a~~~~~~~~~~  538 (552)
T KOG1550|consen  462 YSRAAAQGNADAILKLGDYYYYGLGTGRDPEKAAAQYARASEQG---AQALFNLGYMHEHGEGIKVLHLAKRYYDQASEE  538 (552)
T ss_pred             HHHHHhccCHHHHhhhcceeeecCCCCCChHHHHHHHHHHHHhh---hHHHhhhhhHHhcCcCcchhHHHHHHHHHHHhc
Confidence            6665444445555555554432    335778888888777666   44555555555432 1  257778887777654

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=90.06  E-value=3  Score=28.74  Aligned_cols=46  Identities=13%  Similarity=0.111  Sum_probs=22.2

Q ss_pred             HHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 039362          179 ALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDK  224 (440)
Q Consensus       179 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  224 (440)
                      ..+-++.+....+.|++......+.+|.+.+++..|.++++.+...
T Consensus        29 ~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K   74 (108)
T PF02284_consen   29 LRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKDK   74 (108)
T ss_dssp             HHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHH
Confidence            3344444444455555555555555555555555555555555443

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 ....

>PF07163 Pex26: Pex26 protein; InterPro: IPR010797 This family consists of Pex26 and related mammalian proteins

Probab=89.86  E-value=6.9  Score=32.76  Aligned_cols=88  Identities=14%  Similarity=0.112  Sum_probs=58.3

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHH----
Q 039362          166 LIDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYA----  241 (440)
Q Consensus       166 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~----  241 (440)
                      =|.+++..|+|.+++...-+.-+.--+.........|-.|.+.+.+..+.++-...++..-.-+..-|..+++.|.    
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            3678888999999888776654432233344555556668888999888888887776543344444666666554    


Q ss_pred             -hcCCHHHHHHHH
Q 039362          242 -KCGAIKEALIVF  253 (440)
Q Consensus       242 -~~g~~~~A~~~~  253 (440)
                       -.|.+++|+++.
T Consensus       169 lPLG~~~eAeelv  181 (309)
T PF07163_consen  169 LPLGHFSEAEELV  181 (309)
T ss_pred             hccccHHHHHHHH
Confidence             357777776665

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

>PF10345 Cohesin_load: Cohesin loading factor; InterPro: IPR019440 Cohesin loading factor is a conserved protein that has been characterised in fungi

Probab=89.79  E-value=21  Score=34.81  Aligned_cols=48  Identities=15%  Similarity=-0.040  Sum_probs=32.6

Q ss_pred             HhcCChhHHHHHHHHHHhcC---CC------CCchHHHHHHHHHhccChHHHHHHHH
Q 039362          376 MNHGKLDLAEIVGKKLVELQ---PD------HDGRYVGLSNVYAIFKRWDEARTTRE  423 (440)
Q Consensus       376 ~~~g~~~~a~~~~~~~~~~~---~~------~~~~~~~l~~~~~~~g~~~~A~~~~~  423 (440)
                      .-.|++..|....+.+.+..   |+      .+..+...+..+...|+.+.|...|.
T Consensus       372 ~~~~~~~~a~~~l~~~~~~~~~~~~~~~~~~~~~~~yL~gl~~q~~g~l~~A~~~y~  428 (608)
T PF10345_consen  372 FIRGDWSKATQELEFMRQLCQRSPSKLYESLYPLLHYLLGLYYQSTGDLEAALYQYQ  428 (608)
T ss_pred             HHCcCHHHHHHHHHHHHHHHhcCccchhhhhhHHHHHHHHHHHHHcCCHHHHHHHHh
Confidence            35778888888888887753   22      12234444555556789999999997

It is associated with the cohesin complex and is required in G1 for cohesin binding to chromosomes, but is dispensable in G2 when cohesion has been established. It is often referred to as Ssl3 in Schizosaccharomyces pombe (Fission yeast), and Scc4 in Saccharomyces cerevisiae (Baker's yeast). It complexes with Mis4 [].

>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=89.78  E-value=3.1  Score=32.98  Aligned_cols=71  Identities=8%  Similarity=-0.054  Sum_probs=30.5

Q ss_pred             HHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHhhc---CCCCCcchHHHHHHHHHhcCCHHHH
Q 039362          281 ESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKR---GMVPKSEHYACMVDALSRAGQVTEA  352 (440)
Q Consensus       281 ~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~~~~l~~~~~~~~~~~~a  352 (440)
                      .|.+.|-.+...+.--++.....|...|. ..+.+++..++.++.+.   +-.+|+..+.+|+..|.+.|+++.|
T Consensus       124 ~A~~~fL~~E~~~~l~t~elq~aLAtyY~-krD~~Kt~~ll~~~L~l~~~~~~~n~eil~sLas~~~~~~~~e~A  197 (203)
T PF11207_consen  124 EALRRFLQLEGTPELETAELQYALATYYT-KRDPEKTIQLLLRALELSNPDDNFNPEILKSLASIYQKLKNYEQA  197 (203)
T ss_pred             HHHHHHHHHcCCCCCCCHHHHHHHHHHHH-ccCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhcchhhh
Confidence            44444444444432222222222332222 34455555555554443   1134444555555555555554444

>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=89.36  E-value=9.2  Score=30.18  Aligned_cols=90  Identities=12%  Similarity=-0.028  Sum_probs=58.0

Q ss_pred             HHHHHcCCChHHHHHHHHHHhhcCCCCCcchHH-----HHHHHHHhcCCHHHHHHHHhcCCC-CccHhHHHHHHHHHHhc
Q 039362          305 LSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYA-----CMVDALSRAGQVTEAYEFICQMPL-EPTASMLGSLLTGCMNH  378 (440)
Q Consensus       305 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-----~l~~~~~~~~~~~~a~~~~~~~~~-~p~~~~~~~l~~~~~~~  378 (440)
                      ...+...+++++|+..++.....   |....+.     .|.+.....|.+++|+..++...- .........-...+...
T Consensus        96 Ak~~ve~~~~d~A~aqL~~~l~~---t~De~lk~l~~lRLArvq~q~~k~D~AL~~L~t~~~~~w~~~~~elrGDill~k  172 (207)
T COG2976          96 AKAEVEANNLDKAEAQLKQALAQ---TKDENLKALAALRLARVQLQQKKADAALKTLDTIKEESWAAIVAELRGDILLAK  172 (207)
T ss_pred             HHHHHhhccHHHHHHHHHHHHcc---chhHHHHHHHHHHHHHHHHHhhhHHHHHHHHhccccccHHHHHHHHhhhHHHHc
Confidence            34556778888888888876653   2222222     345566778888888888887631 11222233445667788


Q ss_pred             CChhHHHHHHHHHHhcCCC
Q 039362          379 GKLDLAEIVGKKLVELQPD  397 (440)
Q Consensus       379 g~~~~a~~~~~~~~~~~~~  397 (440)
                      |+.++|...|+++++.+++
T Consensus       173 g~k~~Ar~ay~kAl~~~~s  191 (207)
T COG2976         173 GDKQEARAAYEKALESDAS  191 (207)
T ss_pred             CchHHHHHHHHHHHHccCC
Confidence            8888888888888887633

>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=89.08  E-value=1.1  Score=26.66  Aligned_cols=33  Identities=24%  Similarity=0.321  Sum_probs=26.2

Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHhcCCCCCch
Q 039362          369 GSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGR  401 (440)
Q Consensus       369 ~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~  401 (440)
                      ..+..++.+.|++++|.+..+.+++..|.+..+
T Consensus         5 Y~lAig~ykl~~Y~~A~~~~~~lL~~eP~N~Qa   37 (53)
T PF14853_consen    5 YYLAIGHYKLGEYEKARRYCDALLEIEPDNRQA   37 (53)
T ss_dssp             HHHHHHHHHTT-HHHHHHHHHHHHHHTTS-HHH
T ss_pred             HHHHHHHHHhhhHHHHHHHHHHHHhhCCCcHHH
Confidence            456677889999999999999999999998643

>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]

Probab=88.89  E-value=11  Score=30.41  Aligned_cols=75  Identities=11%  Similarity=-0.004  Sum_probs=45.0

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHhhc--CCCCCcchHHHHHHH
Q 039362          267 NAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKR--GMVPKSEHYACMVDA  342 (440)
Q Consensus       267 ~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~l~~~  342 (440)
                      +.-++.+.+.+...+++...++-++.. +.|..+-..+++.++-.|++++|..-++-.-..  ...+...+|..++++
T Consensus         5 ~~t~seLL~~~sL~dai~~a~~qVkak-Ptda~~RhflfqLlcvaGdw~kAl~Ql~l~a~l~p~~t~~a~lyr~lir~   81 (273)
T COG4455           5 RDTISELLDDNSLQDAIGLARDQVKAK-PTDAGGRHFLFQLLCVAGDWEKALAQLNLAATLSPQDTVGASLYRHLIRC   81 (273)
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHhcC-CccccchhHHHHHHhhcchHHHHHHHHHHHhhcCcccchHHHHHHHHHHH
Confidence            444556667777777777777665553 344445566677777778888777776665553  222333445555443

>KOG1550 consensus Extracellular protein SEL-1 and related proteins [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=88.79  E-value=23  Score=33.97  Aligned_cols=175  Identities=15%  Similarity=0.154  Sum_probs=103.3

Q ss_pred             HHHHHHHHHHHHhcCCCCCHHHHHHHHHH-----HHhcCChHHHHHHHHHHHH-------cCCCCchhhHHHHHHHHHhc
Q 039362          176 YKEALVIFEEMRDVGSKANEVTLVSVLCA-----CAHLGALDQGRMMLRYMID-------KGLSLTLPLQTSLIDMYAKC  243 (440)
Q Consensus       176 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-----~~~~~~~~~a~~~~~~~~~-------~~~~~~~~~~~~l~~~~~~~  243 (440)
                      ...|.++++...+.|..   .....+..+     +....+++.|..+++.+.+       .+   .+.....+..+|.+.
T Consensus       228 ~~~a~~~~~~~a~~g~~---~a~~~~g~~y~~G~~g~~~d~e~a~~~l~~aa~~~~~~a~~~---~~~a~~~lg~~Y~~g  301 (552)
T KOG1550|consen  228 LSEAFKYYREAAKLGHS---EAQYALGICYLAGTYGVTQDLESAIEYLKLAAESFKKAATKG---LPPAQYGLGRLYLQG  301 (552)
T ss_pred             hhHHHHHHHHHHhhcch---HHHHHHHHHHhhccccccccHHHHHHHHHHHHHHHHHHHhhc---CCccccHHHHHHhcC
Confidence            56788888888777622   222222222     3456789999999999877       44   333556677777764


Q ss_pred             C-----CHHHHHHHHhhhhhc-CCchhhHHHHHHHHHh-cCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHH--cCCCh
Q 039362          244 G-----AIKEALIVFHGVEKH-QSDVLIWNAMIGGLAM-HGFVKESLELFTEMQIVGITPDEITFLGLLSACA--HGGLV  314 (440)
Q Consensus       244 g-----~~~~A~~~~~~~~~~-~~~~~~~~~l~~~~~~-~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~--~~~~~  314 (440)
                      .     +.+.|..++...... .|+....-..+..... ..+...|.++|....+.|.. ...-+..++....  -..+.
T Consensus       302 ~~~~~~d~~~A~~~~~~aA~~g~~~a~~~lg~~~~~g~~~~d~~~A~~yy~~Aa~~G~~-~A~~~la~~y~~G~gv~r~~  380 (552)
T KOG1550|consen  302 LGVEKIDYEKALKLYTKAAELGNPDAQYLLGVLYETGTKERDYRRAFEYYSLAAKAGHI-LAIYRLALCYELGLGVERNL  380 (552)
T ss_pred             CCCccccHHHHHHHHHHHHhcCCchHHHHHHHHHHcCCccccHHHHHHHHHHHHHcCCh-HHHHHHHHHHHhCCCcCCCH
Confidence            3     677899999888765 3333332222221112 25678999999999988843 3222222211111  23478


Q ss_pred             HHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcC
Q 039362          315 MEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQM  359 (440)
Q Consensus       315 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  359 (440)
                      ..|..++.+..+.| .|....-...+..+.. ++++.+.-.+..+
T Consensus       381 ~~A~~~~k~aA~~g-~~~A~~~~~~~~~~g~-~~~~~~~~~~~~~  423 (552)
T KOG1550|consen  381 ELAFAYYKKAAEKG-NPSAAYLLGAFYEYGV-GRYDTALALYLYL  423 (552)
T ss_pred             HHHHHHHHHHHHcc-ChhhHHHHHHHHHHcc-ccccHHHHHHHHH
Confidence            89999999999887 3332222223333444 6666555444433

>COG3947 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]

Probab=88.46  E-value=14  Score=31.22  Aligned_cols=62  Identities=19%  Similarity=0.198  Sum_probs=52.4

Q ss_pred             hHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCCchHHHHHHHHHhccChHHHHHHHHHHHh
Q 039362          366 SMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEARTTREAMET  427 (440)
Q Consensus       366 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  427 (440)
                      .++......|...|.+.+|.++.++++..+|-+...+..++..+...|+--.|.+-++++.+
T Consensus       280 kllgkva~~yle~g~~neAi~l~qr~ltldpL~e~~nk~lm~~la~~gD~is~~khyerya~  341 (361)
T COG3947         280 KLLGKVARAYLEAGKPNEAIQLHQRALTLDPLSEQDNKGLMASLATLGDEISAIKHYERYAE  341 (361)
T ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHhhcChhhhHHHHHHHHHHHHhccchhhhhHHHHHHH
Confidence            34455667788999999999999999999999999999999999999998888887777754

>KOG4507 consensus Uncharacterized conserved protein, contains TPR repeats [Function unknown]

Probab=88.43  E-value=2.1  Score=39.57  Aligned_cols=95  Identities=12%  Similarity=-0.022  Sum_probs=44.4

Q ss_pred             CCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcC-C-CCccHhHHHHHHHHHHhcCChhHHHHHH
Q 039362          311 GGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQM-P-LEPTASMLGSLLTGCMNHGKLDLAEIVG  388 (440)
Q Consensus       311 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~-~~p~~~~~~~l~~~~~~~g~~~~a~~~~  388 (440)
                      .|+...|...+..+......-.....-.|.+.+.+.|....|..++.+. . ....+-++..+..++....+.+.|++.|
T Consensus       620 ~gn~~~a~~cl~~a~~~~p~~~~v~~v~la~~~~~~~~~~da~~~l~q~l~~~~sepl~~~~~g~~~l~l~~i~~a~~~~  699 (886)
T KOG4507|consen  620 VGNSTFAIACLQRALNLAPLQQDVPLVNLANLLIHYGLHLDATKLLLQALAINSSEPLTFLSLGNAYLALKNISGALEAF  699 (886)
T ss_pred             cCCcHHHHHHHHHHhccChhhhcccHHHHHHHHHHhhhhccHHHHHHHHHhhcccCchHHHhcchhHHHHhhhHHHHHHH
Confidence            3555555555554443321112222333444444555555555554443 1 1223344445555555555555555555


Q ss_pred             HHHHhcCCCCCchHHHH
Q 039362          389 KKLVELQPDHDGRYVGL  405 (440)
Q Consensus       389 ~~~~~~~~~~~~~~~~l  405 (440)
                      +++.+..|+++.+-+.|
T Consensus       700 ~~a~~~~~~~~~~~~~l  716 (886)
T KOG4507|consen  700 RQALKLTTKCPECENSL  716 (886)
T ss_pred             HHHHhcCCCChhhHHHH
Confidence            55555555555544433

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=88.28  E-value=23  Score=33.40  Aligned_cols=26  Identities=19%  Similarity=0.069  Sum_probs=12.6

Q ss_pred             hhHHHHHHHHHcCCChHHHHHHHHHH
Q 039362          299 ITFLGLLSACAHGGLVMEAWYFFKSL  324 (440)
Q Consensus       299 ~~~~~l~~~~~~~~~~~~a~~~~~~~  324 (440)
                      .-|..|..+....+++..|.+.|.+.
T Consensus       667 ~Kw~~Lg~~al~~~~l~lA~EC~~~a  692 (794)
T KOG0276|consen  667 VKWRQLGDAALSAGELPLASECFLRA  692 (794)
T ss_pred             HHHHHHHHHHhhcccchhHHHHHHhh
Confidence            34444555555555555555444443

>KOG1464 consensus COP9 signalosome, subunit CSN2 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=88.20  E-value=14  Score=30.81  Aligned_cols=89  Identities=16%  Similarity=0.201  Sum_probs=43.3

Q ss_pred             HHHHHHHHhcCCHHHHHHHHhhhhhcCC-------------chhhHHHHHHHHHhcCChHHHHHHHHHHHHc-CCCccHh
Q 039362          234 TSLIDMYAKCGAIKEALIVFHGVEKHQS-------------DVLIWNAMIGGLAMHGFVKESLELFTEMQIV-GITPDEI  299 (440)
Q Consensus       234 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~-------------~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~-~~~p~~~  299 (440)
                      ..|...|...|.+.+...+++++.....             -...|..-|+.|....+-..-..++++...- ..-|.+.
T Consensus       149 tKLgkl~fd~~e~~kl~KIlkqLh~SCq~edGedD~kKGtQLLEiYAlEIQmYT~qKnNKkLK~lYeqalhiKSAIPHPl  228 (440)
T KOG1464|consen  149 TKLGKLYFDRGEYTKLQKILKQLHQSCQTEDGEDDQKKGTQLLEIYALEIQMYTEQKNNKKLKALYEQALHIKSAIPHPL  228 (440)
T ss_pred             chHhhhheeHHHHHHHHHHHHHHHHHhccccCchhhhccchhhhhHhhHhhhhhhhcccHHHHHHHHHHHHhhccCCchH
Confidence            3455566666666666666655543200             1134555566666666666666666654332 1233333


Q ss_pred             hHHHHHHHH-----HcCCChHHHHHHHHH
Q 039362          300 TFLGLLSAC-----AHGGLVMEAWYFFKS  323 (440)
Q Consensus       300 ~~~~l~~~~-----~~~~~~~~a~~~~~~  323 (440)
                      .. ..++-|     .+.|.+++|..-|=+
T Consensus       229 Im-GvIRECGGKMHlreg~fe~AhTDFFE  256 (440)
T KOG1464|consen  229 IM-GVIRECGGKMHLREGEFEKAHTDFFE  256 (440)
T ss_pred             HH-hHHHHcCCccccccchHHHHHhHHHH
Confidence            32 223333     345666666543333

>KOG0545 consensus Aryl-hydrocarbon receptor-interacting protein [Posttranslational modification, protein turnover, chaperones]

Probab=88.14  E-value=2.5  Score=34.45  Aligned_cols=57  Identities=9%  Similarity=-0.010  Sum_probs=30.1

Q ss_pred             HHHHHhcCChhHHHHHHHHHHhcCCCCCchHHHHHHHHHhccChHHHHHHHHHHHhc
Q 039362          372 LTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEARTTREAMETR  428 (440)
Q Consensus       372 ~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  428 (440)
                      ..++...|++-++++....++...|.|..+|..-+.+....=+.++|..=|..+++.
T Consensus       237 ~QC~L~~~e~yevleh~seiL~~~~~nvKA~frRakAhaa~Wn~~eA~~D~~~vL~l  293 (329)
T KOG0545|consen  237 CQCLLKKEEYYEVLEHCSEILRHHPGNVKAYFRRAKAHAAVWNEAEAKADLQKVLEL  293 (329)
T ss_pred             HHHHhhHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHHHhhcCHHHHHHHHHHHHhc
Confidence            334444555555555555555555555555555555555555555555555554443

>PRK11619 lytic murein transglycosylase; Provisional

Probab=88.02  E-value=28  Score=34.04  Aligned_cols=117  Identities=9%  Similarity=-0.029  Sum_probs=66.3

Q ss_pred             cCChHHHHHHHHHHHHcC-CCCch--hhHHHHHHHHHhcCCHHHHHHHHhhhhhcCCchhhHHHHHHHHHhcCChHHHHH
Q 039362          208 LGALDQGRMMLRYMIDKG-LSLTL--PLQTSLIDMYAKCGAIKEALIVFHGVEKHQSDVLIWNAMIGGLAMHGFVKESLE  284 (440)
Q Consensus       208 ~~~~~~a~~~~~~~~~~~-~~~~~--~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  284 (440)
                      ..+.+.|...+....... +.+..  .+...+.......+..++|...+........+......-+......++++.+..
T Consensus       254 r~d~~~A~~~~~~~~~~~~~~~~~~~~~~~~lA~~~a~~~~~~~a~~w~~~~~~~~~~~~~~e~r~r~Al~~~dw~~~~~  333 (644)
T PRK11619        254 RQDAENARLMIPSLVRAQKLNEDQRQELRDIVAWRLMGNDVTDEQAKWRDDVIMRSQSTSLLERRVRMALGTGDRRGLNT  333 (644)
T ss_pred             HhCHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHhccCCHHHHHHHHhcccccCCcHHHHHHHHHHHHccCHHHHHH
Confidence            445677888887764433 22221  222333333333322556666666554333344444444555557788888877


Q ss_pred             HHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHh
Q 039362          285 LFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLG  325 (440)
Q Consensus       285 ~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  325 (440)
                      .+..|.... .-...-...+.+++...|+.++|..+|+.+.
T Consensus       334 ~i~~L~~~~-~~~~rw~YW~aRa~~~~g~~~~A~~~~~~~a  373 (644)
T PRK11619        334 WLARLPMEA-KEKDEWRYWQADLLLEQGRKAEAEEILRQLM  373 (644)
T ss_pred             HHHhcCHhh-ccCHhhHHHHHHHHHHcCCHHHHHHHHHHHh
Confidence            777764432 2233445566777666788888888888764

>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=87.99  E-value=12  Score=29.65  Aligned_cols=90  Identities=11%  Similarity=0.039  Sum_probs=43.8

Q ss_pred             HHHhcCChHHHHHHHHHHHHcCCCCc--hhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCCchhhHHHHHHHHHhcCChHH
Q 039362          204 ACAHLGALDQGRMMLRYMIDKGLSLT--LPLQTSLIDMYAKCGAIKEALIVFHGVEKHQSDVLIWNAMIGGLAMHGFVKE  281 (440)
Q Consensus       204 ~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  281 (440)
                      .+...+++++|...++.........+  ..+-..|.......|.+++|+..++...+..-.......-...+...|+-++
T Consensus        98 ~~ve~~~~d~A~aqL~~~l~~t~De~lk~l~~lRLArvq~q~~k~D~AL~~L~t~~~~~w~~~~~elrGDill~kg~k~~  177 (207)
T COG2976          98 AEVEANNLDKAEAQLKQALAQTKDENLKALAALRLARVQLQQKKADAALKTLDTIKEESWAAIVAELRGDILLAKGDKQE  177 (207)
T ss_pred             HHHhhccHHHHHHHHHHHHccchhHHHHHHHHHHHHHHHHHhhhHHHHHHHHhccccccHHHHHHHHhhhHHHHcCchHH
Confidence            44555666666666665543211111  1122334455555666666666665555221122223333445566666666


Q ss_pred             HHHHHHHHHHcC
Q 039362          282 SLELFTEMQIVG  293 (440)
Q Consensus       282 a~~~~~~m~~~~  293 (440)
                      |..-|+...+.+
T Consensus       178 Ar~ay~kAl~~~  189 (207)
T COG2976         178 ARAAYEKALESD  189 (207)
T ss_pred             HHHHHHHHHHcc
Confidence            666666655543

>KOG4642 consensus Chaperone-dependent E3 ubiquitin protein ligase (contains TPR repeats) [Posttranslational modification, protein turnover, chaperones]

Probab=87.85  E-value=1.7  Score=35.22  Aligned_cols=85  Identities=14%  Similarity=-0.025  Sum_probs=52.6

Q ss_pred             HHcCCChHHHHHHHHHHhhcCCCCCcch-HHHHHHHHHhcCCHHHHHHHHhcC-CCCccHhH-HHHHHHHHHhcCChhHH
Q 039362          308 CAHGGLVMEAWYFFKSLGKRGMVPKSEH-YACMVDALSRAGQVTEAYEFICQM-PLEPTASM-LGSLLTGCMNHGKLDLA  384 (440)
Q Consensus       308 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~-~~~l~~~~~~~~~~~~a~~~~~~~-~~~p~~~~-~~~l~~~~~~~g~~~~a  384 (440)
                      |.....+..|+..|.+.+.  +.|+..+ |..-+..+.+..+++.+..--.+. .+.|+..- ...+..+......+++|
T Consensus        20 ~f~~k~y~~ai~~y~raI~--~nP~~~~Y~tnralchlk~~~~~~v~~dcrralql~~N~vk~h~flg~~~l~s~~~~ea   97 (284)
T KOG4642|consen   20 CFIPKRYDDAIDCYSRAIC--INPTVASYYTNRALCHLKLKHWEPVEEDCRRALQLDPNLVKAHYFLGQWLLQSKGYDEA   97 (284)
T ss_pred             ccchhhhchHHHHHHHHHh--cCCCcchhhhhHHHHHHHhhhhhhhhhhHHHHHhcChHHHHHHHHHHHHHHhhccccHH
Confidence            4455667777777766666  3465533 445566666777777766655554 55665533 33445555667777788


Q ss_pred             HHHHHHHHhc
Q 039362          385 EIVGKKLVEL  394 (440)
Q Consensus       385 ~~~~~~~~~~  394 (440)
                      +..+.++..+
T Consensus        98 I~~Lqra~sl  107 (284)
T KOG4642|consen   98 IKVLQRAYSL  107 (284)
T ss_pred             HHHHHHHHHH
Confidence            8877777554

>TIGR02508 type_III_yscG type III secretion protein, YscG family

Probab=87.42  E-value=7.4  Score=26.77  Aligned_cols=87  Identities=16%  Similarity=0.172  Sum_probs=54.2

Q ss_pred             ChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCCchhhHHHHHHHHHhcCChHHHHHHHHHH
Q 039362          210 ALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQSDVLIWNAMIGGLAMHGFVKESLELFTEM  289 (440)
Q Consensus       210 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m  289 (440)
                      ..++|..+-+.+...+ .....+-..-+..+.+.|++++|..+.+...  .||...|-++..  .+.|-.+++..-+.+|
T Consensus        20 cHqEA~tIAdwL~~~~-~~~E~v~lIRlsSLmNrG~Yq~Al~l~~~~~--~pdlepw~ALce--~rlGl~s~l~~rl~rl   94 (115)
T TIGR02508        20 CHQEANTIADWLHLKG-ESEEAVQLIRLSSLMNRGDYQSALQLGNKLC--YPDLEPWLALCE--WRLGLGSALESRLNRL   94 (115)
T ss_pred             HHHHHHHHHHHHhcCC-chHHHHHHHHHHHHHccchHHHHHHhcCCCC--CchHHHHHHHHH--HhhccHHHHHHHHHHH
Confidence            3456666666555443 1122222333456677888888888888775  788887776654  3566667777777777


Q ss_pred             HHcCCCccHhhHH
Q 039362          290 QIVGITPDEITFL  302 (440)
Q Consensus       290 ~~~~~~p~~~~~~  302 (440)
                      ...| .|....|.
T Consensus        95 a~sg-~p~lq~Fa  106 (115)
T TIGR02508        95 AASG-DPRLQTFV  106 (115)
T ss_pred             HhCC-CHHHHHHH
Confidence            7766 55555544

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.

>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]

Probab=87.32  E-value=24  Score=32.57  Aligned_cols=63  Identities=10%  Similarity=0.108  Sum_probs=28.2

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhc
Q 039362          194 NEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKH  259 (440)
Q Consensus       194 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  259 (440)
                      |.....+++..+.......-++.+..+|+..|  .+-..+..++++|... ..++-..+|+++.+.
T Consensus        65 ~d~~l~~~~~~f~~n~k~~~veh~c~~~l~~~--e~kmal~el~q~y~en-~n~~l~~lWer~ve~  127 (711)
T COG1747          65 DDSCLVTLLTIFGDNHKNQIVEHLCTRVLEYG--ESKMALLELLQCYKEN-GNEQLYSLWERLVEY  127 (711)
T ss_pred             cchHHHHHHHHhccchHHHHHHHHHHHHHHhc--chHHHHHHHHHHHHhc-CchhhHHHHHHHHHh
Confidence            34444444444444444444444444444433  2333444445555444 333444444444433

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=87.17  E-value=7.9  Score=26.79  Aligned_cols=60  Identities=10%  Similarity=0.116  Sum_probs=41.2

Q ss_pred             HHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCCc-hhhHHHHHH
Q 039362          212 DQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQSD-VLIWNAMIG  271 (440)
Q Consensus       212 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~l~~  271 (440)
                      -+..+-++.+....+.|++.+..+.+.++.+.+++..|.++|+.+.....+ ...|..+++
T Consensus        27 we~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K~~~~~~~Y~~~lq   87 (108)
T PF02284_consen   27 WELRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKDKCGNKKEIYPYILQ   87 (108)
T ss_dssp             HHHHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHTTT-TTHHHHHHH
T ss_pred             HHHHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHHccChHHHHHHHHH
Confidence            356666777777788899999999999999999999999999988754322 225655553

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 ....

>TIGR02508 type_III_yscG type III secretion protein, YscG family

Probab=87.04  E-value=7.9  Score=26.66  Aligned_cols=58  Identities=16%  Similarity=0.119  Sum_probs=32.6

Q ss_pred             HHHhcCChHHHHHHHhhCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHH
Q 039362          138 GYAKCGEMNMARQVFELMPERNVVSWSALIDGYVKCGDYKEALVIFEEMRDVGSKANEVTL  198 (440)
Q Consensus       138 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  198 (440)
                      .+...|++++|..+.+....||...|..+.  -.+.|..++...-+.+|..+| .|....|
T Consensus        48 SLmNrG~Yq~Al~l~~~~~~pdlepw~ALc--e~rlGl~s~l~~rl~rla~sg-~p~lq~F  105 (115)
T TIGR02508        48 SLMNRGDYQSALQLGNKLCYPDLEPWLALC--EWRLGLGSALESRLNRLAASG-DPRLQTF  105 (115)
T ss_pred             HHHccchHHHHHHhcCCCCCchHHHHHHHH--HHhhccHHHHHHHHHHHHhCC-CHHHHHH
Confidence            344555555555555555556666665443  345666666666666666665 4444443

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.

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=86.82  E-value=6.8  Score=33.39  Aligned_cols=95  Identities=8%  Similarity=0.100  Sum_probs=60.3

Q ss_pred             hhhHHHHHHHHHhcCChHHHHHHHHHHHHcC---CCccHhhHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCCcchHHHH
Q 039362          263 VLIWNAMIGGLAMHGFVKESLELFTEMQIVG---ITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACM  339 (440)
Q Consensus       263 ~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~---~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  339 (440)
                      ..+...++..-....+++.++..+-+++..-   ..|+. +-...++.|.+ -++++++.++..=+.-|+-||..+++.+
T Consensus        64 ~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~-~~~~~irlllk-y~pq~~i~~l~npIqYGiF~dqf~~c~l  141 (418)
T KOG4570|consen   64 SLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNW-TIHTWIRLLLK-YDPQKAIYTLVNPIQYGIFPDQFTFCLL  141 (418)
T ss_pred             eeehhhhhhccccccchhHHHHHHHHHhcCcchhhhccc-cHHHHHHHHHc-cChHHHHHHHhCcchhccccchhhHHHH
Confidence            3444555555555677778877777766431   11222 22233333333 4566777777777777888888888888


Q ss_pred             HHHHHhcCCHHHHHHHHhcC
Q 039362          340 VDALSRAGQVTEAYEFICQM  359 (440)
Q Consensus       340 ~~~~~~~~~~~~a~~~~~~~  359 (440)
                      ++.+.+.+++.+|..+...|
T Consensus       142 ~D~flk~~n~~~aa~vvt~~  161 (418)
T KOG4570|consen  142 MDSFLKKENYKDAASVVTEV  161 (418)
T ss_pred             HHHHHhcccHHHHHHHHHHH
Confidence            88888888888887776665

>PF14561 TPR_20: Tetratricopeptide repeat; PDB: 3QOU_A 2R5S_A 3QDN_B

Probab=86.64  E-value=2.3  Score=28.90  Aligned_cols=53  Identities=17%  Similarity=0.109  Sum_probs=33.5

Q ss_pred             cHhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCC--CchHHHHHHHHHhccChH
Q 039362          364 TASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDH--DGRYVGLSNVYAIFKRWD  416 (440)
Q Consensus       364 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~  416 (440)
                      |...-..+...+...|++++|++.+-.+++.++..  ...-..++..+...|.-+
T Consensus        21 D~~ar~~lA~~~~~~g~~e~Al~~Ll~~v~~dr~~~~~~ar~~ll~~f~~lg~~~   75 (90)
T PF14561_consen   21 DLDARYALADALLAAGDYEEALDQLLELVRRDRDYEDDAARKRLLDIFELLGPGD   75 (90)
T ss_dssp             -HHHHHHHHHHHHHTT-HHHHHHHHHHHHCC-TTCCCCHHHHHHHHHHHHH-TT-
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCccccccHHHHHHHHHHHHcCCCC
Confidence            44566667777788888888888888888776543  445666777776666643

>PRK13800 putative oxidoreductase/HEAT repeat-containing protein; Provisional

Probab=86.58  E-value=42  Score=34.57  Aligned_cols=247  Identities=11%  Similarity=-0.026  Sum_probs=130.0

Q ss_pred             CCCcchHHHHHHHhhchhcHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhcCCH-HHHHHHhhCCCCCchhhHHHHHHH
Q 039362           60 SPDHLTYPFLAKASGRLAKRELAVAVHAQIAKTGYESDLFISNSLIHMYGSCGDI-VYAREVFDGMPTKMSVSWNSMLDG  138 (440)
Q Consensus        60 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~-~~a~~~~~~~~~~~~~~~~~l~~~  138 (440)
                      .+|+..-...+..+.+.+..+ +...+..+.+.   ++..+-...+.++.+.+.. .....+...+..+|...-...+..
T Consensus       632 D~d~~VR~~Av~~L~~~~~~~-~~~~L~~aL~D---~d~~VR~~Aa~aL~~l~~~~~~~~~L~~~L~~~d~~VR~~A~~a  707 (897)
T PRK13800        632 DPDPGVRRTAVAVLTETTPPG-FGPALVAALGD---GAAAVRRAAAEGLRELVEVLPPAPALRDHLGSPDPVVRAAALDV  707 (897)
T ss_pred             CCCHHHHHHHHHHHhhhcchh-HHHHHHHHHcC---CCHHHHHHHHHHHHHHHhccCchHHHHHHhcCCCHHHHHHHHHH
Confidence            356666666666666666544 44444444432   2444444444444443221 111112222333455544455555


Q ss_pred             HHhcCChHHHHHHHhhCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHH-HHHH
Q 039362          139 YAKCGEMNMARQVFELMPERNVVSWSALIDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQ-GRMM  217 (440)
Q Consensus       139 ~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~-a~~~  217 (440)
                      +...+.. ....+...+..+|...-...+.++.+.+..+.    +..+.   ..++...-...+.++...+..+. +...
T Consensus       708 L~~~~~~-~~~~l~~~L~D~d~~VR~~Av~aL~~~~~~~~----l~~~l---~D~~~~VR~~aa~aL~~~~~~~~~~~~~  779 (897)
T PRK13800        708 LRALRAG-DAALFAAALGDPDHRVRIEAVRALVSVDDVES----VAGAA---TDENREVRIAVAKGLATLGAGGAPAGDA  779 (897)
T ss_pred             HHhhccC-CHHHHHHHhcCCCHHHHHHHHHHHhcccCcHH----HHHHh---cCCCHHHHHHHHHHHHHhccccchhHHH
Confidence            5443321 12334455556666666666666666554432    12222   14556666666666666665432 3344


Q ss_pred             HHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCCchhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcc
Q 039362          218 LRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQSDVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPD  297 (440)
Q Consensus       218 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~  297 (440)
                      +..+.+   .++..+-...+.++...|..+.+...+....+ .++...-...+.++...+. +++...+..+..   .|+
T Consensus       780 L~~ll~---D~d~~VR~aA~~aLg~~g~~~~~~~~l~~aL~-d~d~~VR~~Aa~aL~~l~~-~~a~~~L~~~L~---D~~  851 (897)
T PRK13800        780 VRALTG---DPDPLVRAAALAALAELGCPPDDVAAATAALR-ASAWQVRQGAARALAGAAA-DVAVPALVEALT---DPH  851 (897)
T ss_pred             HHHHhc---CCCHHHHHHHHHHHHhcCCcchhHHHHHHHhc-CCChHHHHHHHHHHHhccc-cchHHHHHHHhc---CCC
Confidence            444443   35566777778888888876555443433332 4566666667777777765 345566655553   456


Q ss_pred             HhhHHHHHHHHHcCCChHHHHHHHHHHhh
Q 039362          298 EITFLGLLSACAHGGLVMEAWYFFKSLGK  326 (440)
Q Consensus       298 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  326 (440)
                      ...-...+.++.+......+...+..+.+
T Consensus       852 ~~VR~~A~~aL~~~~~~~~a~~~L~~al~  880 (897)
T PRK13800        852 LDVRKAAVLALTRWPGDPAARDALTTALT  880 (897)
T ss_pred             HHHHHHHHHHHhccCCCHHHHHHHHHHHh
Confidence            66666666666665334456666666665

>KOG1308 consensus Hsp70-interacting protein Hip/Transient component of progesterone receptor complexes and an Hsp70-binding protein [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=86.57  E-value=0.77  Score=39.24  Aligned_cols=117  Identities=15%  Similarity=0.029  Sum_probs=63.4

Q ss_pred             HcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcC-CCCccHh-HHHHHHHHHHhcCChhHHHH
Q 039362          309 AHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQM-PLEPTAS-MLGSLLTGCMNHGKLDLAEI  386 (440)
Q Consensus       309 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p~~~-~~~~l~~~~~~~g~~~~a~~  386 (440)
                      ...|.++.|++.|...+... .+....|..-..++.+.++...|++-+... .+.||.. -|-.-..+-...|++++|.+
T Consensus       125 ln~G~~~~ai~~~t~ai~ln-p~~a~l~~kr~sv~lkl~kp~~airD~d~A~ein~Dsa~~ykfrg~A~rllg~~e~aa~  203 (377)
T KOG1308|consen  125 LNDGEFDTAIELFTSAIELN-PPLAILYAKRASVFLKLKKPNAAIRDCDFAIEINPDSAKGYKFRGYAERLLGNWEEAAH  203 (377)
T ss_pred             hcCcchhhhhcccccccccC-CchhhhcccccceeeeccCCchhhhhhhhhhccCcccccccchhhHHHHHhhchHHHHH
Confidence            34567777777777776653 334455555566666777777777666665 5555442 22222333345677777777


Q ss_pred             HHHHHHhcCCCCCchHHHHHHHHHhccChHHHHHHHHHHHh
Q 039362          387 VGKKLVELQPDHDGRYVGLSNVYAIFKRWDEARTTREAMET  427 (440)
Q Consensus       387 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  427 (440)
                      .++.+++++-+.. +-..+-.+.-..+..++-...+++.++
T Consensus       204 dl~~a~kld~dE~-~~a~lKeV~p~a~ki~e~~~k~er~~~  243 (377)
T KOG1308|consen  204 DLALACKLDYDEA-NSATLKEVFPNAGKIEEHRRKYERARE  243 (377)
T ss_pred             HHHHHHhccccHH-HHHHHHHhccchhhhhhchhHHHHHHH
Confidence            7777777663321 222233333344444444444444433

>COG3947 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]

Probab=86.18  E-value=20  Score=30.43  Aligned_cols=58  Identities=16%  Similarity=0.152  Sum_probs=34.8

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHh
Q 039362          267 NAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLG  325 (440)
Q Consensus       267 ~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  325 (440)
                      +.....|...|.+.+|.++.+.....+ +.+...+-.++..+...|+--.+...++++.
T Consensus       283 gkva~~yle~g~~neAi~l~qr~ltld-pL~e~~nk~lm~~la~~gD~is~~khyerya  340 (361)
T COG3947         283 GKVARAYLEAGKPNEAIQLHQRALTLD-PLSEQDNKGLMASLATLGDEISAIKHYERYA  340 (361)
T ss_pred             HHHHHHHHHcCChHHHHHHHHHHhhcC-hhhhHHHHHHHHHHHHhccchhhhhHHHHHH
Confidence            334456666677777776666666554 4455566666666666666555555555443

>PF09477 Type_III_YscG: Bacterial type II secretion system chaperone protein (type_III_yscG); InterPro: IPR013348 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)

Probab=85.72  E-value=9.9  Score=26.56  Aligned_cols=86  Identities=14%  Similarity=0.212  Sum_probs=43.5

Q ss_pred             ChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCCchhhHHHHHHHHHhcCChHHHHHHHHHH
Q 039362          210 ALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQSDVLIWNAMIGGLAMHGFVKESLELFTEM  289 (440)
Q Consensus       210 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m  289 (440)
                      ..++|..+.+.+...+. ....+-..-+..+.+.|+|++|  +........||...|-++..  .+.|-.+++...+.++
T Consensus        21 cH~EA~tIa~wL~~~~~-~~E~v~lIr~~sLmNrG~Yq~A--Ll~~~~~~~pdL~p~~AL~a--~klGL~~~~e~~l~rl   95 (116)
T PF09477_consen   21 CHQEANTIADWLEQEGE-MEEVVALIRLSSLMNRGDYQEA--LLLPQCHCYPDLEPWAALCA--WKLGLASALESRLTRL   95 (116)
T ss_dssp             -HHHHHHHHHHHHHTTT-THHHHHHHHHHHHHHTT-HHHH--HHHHTTS--GGGHHHHHHHH--HHCT-HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCc-HHHHHHHHHHHHHHhhHHHHHH--HHhcccCCCccHHHHHHHHH--HhhccHHHHHHHHHHH
Confidence            45667777776666552 2233333344556667777777  22222222566666655533  3566666666666666


Q ss_pred             HHcCCCccHhhH
Q 039362          290 QIVGITPDEITF  301 (440)
Q Consensus       290 ~~~~~~p~~~~~  301 (440)
                      ...| .|....|
T Consensus        96 a~~g-~~~~q~F  106 (116)
T PF09477_consen   96 ASSG-SPELQAF  106 (116)
T ss_dssp             CT-S-SHHHHHH
T ss_pred             HhCC-CHHHHHH
Confidence            5554 4444433

The secretion system delivers effector proteins, designated Yops (Yersinia outer proteins), in Yersinia. This entry consists of YscG from Yersinia, and functionally equivalent type III secretion proteins in other species: e.g. AscG in Aeromonas and LscG in Photorhabdus luminescens.; GO: 0009405 pathogenesis; PDB: 3PH0_D 2UWJ_G 2P58_C.

>TIGR03504 FimV_Cterm FimV C-terminal domain

Probab=85.47  E-value=2.5  Score=24.01  Aligned_cols=24  Identities=29%  Similarity=0.509  Sum_probs=14.3

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhc
Q 039362          166 LIDGYVKCGDYKEALVIFEEMRDV  189 (440)
Q Consensus       166 l~~~~~~~~~~~~a~~~~~~~~~~  189 (440)
                      +..+|...|+.+.|.+++++....
T Consensus         5 LA~ayie~Gd~e~Ar~lL~evl~~   28 (44)
T TIGR03504         5 LARAYIEMGDLEGARELLEEVIEE   28 (44)
T ss_pred             HHHHHHHcCChHHHHHHHHHHHHc
Confidence            455666666666666666665543

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.

>KOG3364 consensus Membrane protein involved in organellar division [Cell wall/membrane/envelope biogenesis]

Probab=85.43  E-value=6.1  Score=28.99  Aligned_cols=70  Identities=17%  Similarity=0.150  Sum_probs=38.5

Q ss_pred             CCcchHHHHHHHHHhcCC---HHHHHHHHhcC-C-CCcc--HhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCCc
Q 039362          331 PKSEHYACMVDALSRAGQ---VTEAYEFICQM-P-LEPT--ASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDG  400 (440)
Q Consensus       331 ~~~~~~~~l~~~~~~~~~---~~~a~~~~~~~-~-~~p~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~  400 (440)
                      ++..+--.+..++.+..+   ..+.+.++++. + -.|+  ......|.-++.+.++++++..+.+..++..|+|+.
T Consensus        30 ~s~~s~f~lAwaLV~S~~~~dv~~GI~iLe~l~~~~~~~~rRe~lyYLAvg~yRlkeY~~s~~yvd~ll~~e~~n~Q  106 (149)
T KOG3364|consen   30 VSKQSQFNLAWALVRSRDTEDVQEGIVILEDLLKSAHPERRRECLYYLAVGHYRLKEYSKSLRYVDALLETEPNNRQ  106 (149)
T ss_pred             chHHHHHHHHHHHHcccchHHHHHhHHHHHHHhhhcCcccchhhhhhhHHHHHHHhhHHHHHHHHHHHHhhCCCcHH
Confidence            444444455555555443   33445555554 2 2232  233345555666777777777777777777766653

>smart00386 HAT HAT (Half-A-TPR) repeats

Probab=85.04  E-value=1.9  Score=22.03  Aligned_cols=30  Identities=13%  Similarity=0.252  Sum_probs=23.3

Q ss_pred             CChhHHHHHHHHHHhcCCCCCchHHHHHHH
Q 039362          379 GKLDLAEIVGKKLVELQPDHDGRYVGLSNV  408 (440)
Q Consensus       379 g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~  408 (440)
                      |+.+.+..+|++++...|.++..|...+..
T Consensus         1 ~~~~~~r~i~e~~l~~~~~~~~~W~~y~~~   30 (33)
T smart00386        1 GDIERARKIYERALEKFPKSVELWLKYAEF   30 (33)
T ss_pred             CcHHHHHHHHHHHHHHCCCChHHHHHHHHH
Confidence            567888889999988888777777766653

Present in several RNA-binding proteins. Structurally and sequentially thought to be similar to TPRs.

>KOG0889 consensus Histone acetyltransferase SAGA, TRRAP/TRA1 component, PI-3 kinase superfamily [Signal transduction mechanisms; Chromatin structure and dynamics; Replication, recombination and repair; Cell cycle control, cell division, chromosome partitioning]

Probab=84.65  E-value=69  Score=37.57  Aligned_cols=20  Identities=20%  Similarity=0.135  Sum_probs=12.7

Q ss_pred             HHHHccCChhhHHHHHHHHH
Q 039362           36 RGYSKSKNPNKSISLFVKML   55 (440)
Q Consensus        36 ~~~~~~~~~~~a~~~~~~~~   55 (440)
                      -.+.+.|.+++|..+|++..
T Consensus      2490 ~s~eQ~G~~e~AQ~lyekaq 2509 (3550)
T KOG0889|consen 2490 LSYEQLGFWEEAQSLYEKAQ 2509 (3550)
T ss_pred             HHHHHhhhHHHHhhHHHHHH
Confidence            34566677777777776643

>smart00028 TPR Tetratricopeptide repeats

Probab=84.64  E-value=2.1  Score=21.31  Aligned_cols=29  Identities=24%  Similarity=0.203  Sum_probs=25.2

Q ss_pred             chHHHHHHHHHhccChHHHHHHHHHHHhc
Q 039362          400 GRYVGLSNVYAIFKRWDEARTTREAMETR  428 (440)
Q Consensus       400 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  428 (440)
                      ..+..++..+...|++++|...+++.++.
T Consensus         2 ~~~~~~a~~~~~~~~~~~a~~~~~~~~~~   30 (34)
T smart00028        2 EALYNLGNAYLKLGDYDEALEYYEKALEL   30 (34)
T ss_pred             hHHHHHHHHHHHHhhHHHHHHHHHHHHcc
Confidence            36778899999999999999999888764

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.

>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function

Probab=84.12  E-value=7  Score=31.82  Aligned_cols=66  Identities=12%  Similarity=-0.035  Sum_probs=40.5

Q ss_pred             HHHHHHHHHHhcCChh-------HHHHHHHHHHhcC--CCC----CchHHHHHHHHHhccChHHHHHHHHHHHhcCCcc
Q 039362          367 MLGSLLTGCMNHGKLD-------LAEIVGKKLVELQ--PDH----DGRYVGLSNVYAIFKRWDEARTTREAMETRGVKK  432 (440)
Q Consensus       367 ~~~~l~~~~~~~g~~~-------~a~~~~~~~~~~~--~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~  432 (440)
                      ++..+.+.|...|+.+       .|...|+++.+..  |..    ......++....+.|++++|.+.|.++...+-.+
T Consensus       120 l~LrlAWlyR~~~~~~~E~~fl~~Al~~y~~a~~~e~~~~~~~~~~~l~YLigeL~rrlg~~~eA~~~fs~vi~~~~~s  198 (214)
T PF09986_consen  120 LCLRLAWLYRDLGDEENEKRFLRKALEFYEEAYENEDFPIEGMDEATLLYLIGELNRRLGNYDEAKRWFSRVIGSKKAS  198 (214)
T ss_pred             HHHHHHHHhhccCCHHHHHHHHHHHHHHHHHHHHhCcCCCCCchHHHHHHHHHHHHHHhCCHHHHHHHHHHHHcCCCCC
Confidence            3445555566666533       4555555555443  222    2345667778888888888888888888765433

>PF04190 DUF410: Protein of unknown function (DUF410) ; InterPro: IPR007317 This is a family of conserved eukaryotic proteins with undetermined function

Probab=83.35  E-value=27  Score=29.58  Aligned_cols=82  Identities=16%  Similarity=0.106  Sum_probs=46.6

Q ss_pred             CcchHHHHHHHHHhcCCHHHHHHHHhcCCCCccHhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCCchHHHHHHHHHh
Q 039362          332 KSEHYACMVDALSRAGQVTEAYEFICQMPLEPTASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAI  411 (440)
Q Consensus       332 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~  411 (440)
                      ++.....+...|.+.|++.+|...|-.-. .|+...+..++......|...++-              ......+--|.-
T Consensus        89 dp~LH~~~a~~~~~e~~~~~A~~Hfl~~~-~~~~~~~~~ll~~~~~~~~~~e~d--------------lfi~RaVL~yL~  153 (260)
T PF04190_consen   89 DPELHHLLAEKLWKEGNYYEAERHFLLGT-DPSAFAYVMLLEEWSTKGYPSEAD--------------LFIARAVLQYLC  153 (260)
T ss_dssp             -HHHHHHHHHHHHHTT-HHHHHHHHHTS--HHHHHHHHHHHHHHHHHTSS--HH--------------HHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHhhccHHHHHHHHHhcC-ChhHHHHHHHHHHHHHhcCCcchh--------------HHHHHHHHHHHH
Confidence            56677788888889999888887775443 223333222333333334333331              123334455667


Q ss_pred             ccChHHHHHHHHHHHhc
Q 039362          412 FKRWDEARTTREAMETR  428 (440)
Q Consensus       412 ~g~~~~A~~~~~~~~~~  428 (440)
                      .|+...|...++...+.
T Consensus       154 l~n~~~A~~~~~~f~~~  170 (260)
T PF04190_consen  154 LGNLRDANELFDTFTSK  170 (260)
T ss_dssp             TTBHHHHHHHHHHHHHH
T ss_pred             hcCHHHHHHHHHHHHHH
Confidence            78888888888777665

; PDB: 3LKU_E 2WPV_G.

>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=83.00  E-value=3.1  Score=27.11  Aligned_cols=46  Identities=15%  Similarity=0.079  Sum_probs=34.8

Q ss_pred             hcCChhHHHHHHHHHHhcCCCCCch---HHHHHHHHHhccChHHHHHHH
Q 039362          377 NHGKLDLAEIVGKKLVELQPDHDGR---YVGLSNVYAIFKRWDEARTTR  422 (440)
Q Consensus       377 ~~g~~~~a~~~~~~~~~~~~~~~~~---~~~l~~~~~~~g~~~~A~~~~  422 (440)
                      ...+.++|+..|+++++..++.+.-   +-.+..+|...|++.+++++-
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            6777888999999998877665553   445667788888888887764

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

>PRK13800 putative oxidoreductase/HEAT repeat-containing protein; Provisional

Probab=82.61  E-value=63  Score=33.34  Aligned_cols=19  Identities=21%  Similarity=0.128  Sum_probs=8.7

Q ss_pred             CcchHHHHHHHHHhcCCHH
Q 039362          332 KSEHYACMVDALSRAGQVT  350 (440)
Q Consensus       332 ~~~~~~~l~~~~~~~~~~~  350 (440)
                      +...-...+.++...|..+
T Consensus       788 d~~VR~aA~~aLg~~g~~~  806 (897)
T PRK13800        788 DPLVRAAALAALAELGCPP  806 (897)
T ss_pred             CHHHHHHHHHHHHhcCCcc
Confidence            3344444445555555433

>KOG2063 consensus Vacuolar assembly/sorting proteins VPS39/VAM6/VPS3 [Intracellular trafficking, secretion, and vesicular transport]

Probab=82.51  E-value=58  Score=32.88  Aligned_cols=123  Identities=11%  Similarity=0.097  Sum_probs=65.3

Q ss_pred             hhhHHHHhhhcCCCChHHHHHHHHHHHccCChhhHHHHHHHHHHcC---CCCCcchHHHHHHHhhchhcH--HHHHHHHH
Q 039362           13 IDYSCKVLSHLSNPRIFYWNTVIRGYSKSKNPNKSISLFVKMLRAG---VSPDHLTYPFLAKASGRLAKR--ELAVAVHA   87 (440)
Q Consensus        13 ~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~l~~~~~~~~~~--~~a~~~~~   87 (440)
                      +++....+.+..     -|..|+..|...|+.++|+++|.+.....   -.--...+..+++.+...+..  +-..+.-+
T Consensus       494 vee~e~~L~k~~-----~y~~Li~LY~~kg~h~~AL~ll~~l~d~~~~~d~~~~~~~e~ii~YL~~l~~~~~~Li~~y~~  568 (877)
T KOG2063|consen  494 VEEIETVLKKSK-----KYRELIELYATKGMHEKALQLLRDLVDEDSDTDSFQLDGLEKIIEYLKKLGAENLDLILEYAD  568 (877)
T ss_pred             hHHHHHHHHhcc-----cHHHHHHHHHhccchHHHHHHHHHHhccccccccchhhhHHHHHHHHHHhcccchhHHHHHhh
Confidence            444444444432     36778888888888888888888876631   001112244455555555544  55555544


Q ss_pred             HHHHcCCCCcHHHHH------------HHHHHHHhcCCHHHHHHHhhCCCC----CchhhHHHHHHHHH
Q 039362           88 QIAKTGYESDLFISN------------SLIHMYGSCGDIVYAREVFDGMPT----KMSVSWNSMLDGYA  140 (440)
Q Consensus        88 ~~~~~~~~~~~~~~~------------~l~~~~~~~g~~~~a~~~~~~~~~----~~~~~~~~l~~~~~  140 (440)
                      ...+..+.....++.            ..+-.|......+-+..+++.+..    .+..-.+.++..|.
T Consensus       569 wvl~~~p~~gi~Ift~~~~~~~~sis~~~Vl~~l~~~~~~l~I~YLE~li~~~~~~~~~lht~ll~ly~  637 (877)
T KOG2063|consen  569 WVLNKNPEAGIQIFTSEDKQEAESISRDDVLNYLKSKEPKLLIPYLEHLISDNRLTSTLLHTVLLKLYL  637 (877)
T ss_pred             hhhccCchhheeeeeccChhhhccCCHHHHHHHhhhhCcchhHHHHHHHhHhccccchHHHHHHHHHHH
Confidence            444432211111111            122345566777777777777653    24445555555554

>PF09670 Cas_Cas02710: CRISPR-associated protein (Cas_Cas02710)

Probab=82.31  E-value=31  Score=31.17  Aligned_cols=52  Identities=12%  Similarity=0.044  Sum_probs=23.6

Q ss_pred             HHhcCCHHHHHHHHhhhhhc-CCchh--hHHHHHHHHHh--cCChHHHHHHHHHHHH
Q 039362          240 YAKCGAIKEALIVFHGVEKH-QSDVL--IWNAMIGGLAM--HGFVKESLELFTEMQI  291 (440)
Q Consensus       240 ~~~~g~~~~A~~~~~~~~~~-~~~~~--~~~~l~~~~~~--~~~~~~a~~~~~~m~~  291 (440)
                      +.+.+++..|.++|..+... .++..  .+..+..+|..  .-++.+|.+.++....
T Consensus       141 l~n~~~y~aA~~~l~~l~~rl~~~~~~~~~~~l~~~y~~WD~fd~~~A~~~l~~~~~  197 (379)
T PF09670_consen  141 LFNRYDYGAAARILEELLRRLPGREEYQRYKDLCEGYDAWDRFDHKEALEYLEKLLK  197 (379)
T ss_pred             HHhcCCHHHHHHHHHHHHHhCCchhhHHHHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            33555666666666655543 22221  22333333332  3345555555555443

>KOG0376 consensus Serine-threonine phosphatase 2A, catalytic subunit [General function prediction only]

Probab=82.25  E-value=1.1  Score=40.18  Aligned_cols=98  Identities=16%  Similarity=0.071  Sum_probs=70.3

Q ss_pred             HHHHHcCCChHHHHHHHHHHhhcCCCCCcchH-HHHHHHHHhcCCHHHHHHHHhcC-CCCccH-hHHHHHHHHHHhcCCh
Q 039362          305 LSACAHGGLVMEAWYFFKSLGKRGMVPKSEHY-ACMVDALSRAGQVTEAYEFICQM-PLEPTA-SMLGSLLTGCMNHGKL  381 (440)
Q Consensus       305 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-~~l~~~~~~~~~~~~a~~~~~~~-~~~p~~-~~~~~l~~~~~~~g~~  381 (440)
                      +......+.++.|..++.++++.  .|+...| ..-..++.+.+++..|+.-+.++ ...|.. ..|.-=..++...+.+
T Consensus        11 an~~l~~~~fd~avdlysKaI~l--dpnca~~~anRa~a~lK~e~~~~Al~Da~kaie~dP~~~K~Y~rrg~a~m~l~~~   88 (476)
T KOG0376|consen   11 ANEALKDKVFDVAVDLYSKAIEL--DPNCAIYFANRALAHLKVESFGGALHDALKAIELDPTYIKAYVRRGTAVMALGEF   88 (476)
T ss_pred             HhhhcccchHHHHHHHHHHHHhc--CCcceeeechhhhhheeechhhhHHHHHHhhhhcCchhhheeeeccHHHHhHHHH
Confidence            44556778899999999999885  4654443 34447788889998888777766 656643 3344445567778888


Q ss_pred             hHHHHHHHHHHhcCCCCCchHHH
Q 039362          382 DLAEIVGKKLVELQPDHDGRYVG  404 (440)
Q Consensus       382 ~~a~~~~~~~~~~~~~~~~~~~~  404 (440)
                      .+|...|+......|+++.....
T Consensus        89 ~~A~~~l~~~~~l~Pnd~~~~r~  111 (476)
T KOG0376|consen   89 KKALLDLEKVKKLAPNDPDATRK  111 (476)
T ss_pred             HHHHHHHHHhhhcCcCcHHHHHH
Confidence            89999999998898988754433

>cd08819 CARD_MDA5_2 Caspase activation and recruitment domain found in MDA5, second repeat

Probab=81.78  E-value=12  Score=24.97  Aligned_cols=65  Identities=14%  Similarity=0.096  Sum_probs=31.3

Q ss_pred             HHHHHHHHHHcCCCCcHHHHHHHHHHHHhcCCHHHHHHHhhCCCCCchhhHHHHHHHHHhcCChHHH
Q 039362           82 AVAVHAQIAKTGYESDLFISNSLIHMYGSCGDIVYAREVFDGMPTKMSVSWNSMLDGYAKCGEMNMA  148 (440)
Q Consensus        82 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  148 (440)
                      +.++++.+.+.|+- +..-...+-.+-...|+.+.|.+++..+. +.+..|..++.++...|.-+-|
T Consensus        21 ~~~v~d~ll~~~il-T~~d~e~I~aa~~~~g~~~~ar~LL~~L~-rg~~aF~~Fl~aLreT~~~~LA   85 (88)
T cd08819          21 TRDVCDKCLEQGLL-TEEDRNRIEAATENHGNESGARELLKRIV-QKEGWFSKFLQALRETEHHELA   85 (88)
T ss_pred             HHHHHHHHHhcCCC-CHHHHHHHHHhccccCcHHHHHHHHHHhc-cCCcHHHHHHHHHHHcCchhhh
Confidence            33555555555533 22222222222223455666666666665 5555555555555555544333

Caspase activation and recruitment domain (CARD) found in MDA5 (melanoma-differentiation-associated gene 5), second repeat. MDA5, also known as IFIH1, contains two N-terminal CARD domains and a C-terminal RNA helicase domain. MDA5 is a cytoplasmic DEAD box RNA helicase that plays an important role in host antiviral response by sensing incoming viral RNA. Upon activation, the signal is transferred to downstream pathways via the adaptor molecule IPS-1 (MAVS, VISA, CARDIF), leading to the induction of type I interferons. Although very similar in sequence, MDA5 recognizes different sets of viruses compared to RIG-I, a related RNA helicase. MDA5 associates with IPS-1 through a CARD-CARD interaction. In general, CARDs are death domains (DDs) found associated with caspases. They are known to be important in the signaling pathways for apoptosis, inflammation, and host-defense mechanisms. DDs are protei

>PF04190 DUF410: Protein of unknown function (DUF410) ; InterPro: IPR007317 This is a family of conserved eukaryotic proteins with undetermined function

Probab=81.40  E-value=32  Score=29.12  Aligned_cols=85  Identities=14%  Similarity=0.138  Sum_probs=45.5

Q ss_pred             CCCcHHHHHHHHHHHHhcCCHHHHHHHhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHhhCCCCchhhHHHHHHHHHhc
Q 039362           94 YESDLFISNSLIHMYGSCGDIVYAREVFDGMPTKMSVSWNSMLDGYAKCGEMNMARQVFELMPERNVVSWSALIDGYVKC  173 (440)
Q Consensus        94 ~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~  173 (440)
                      ..-++..+..+...|.+.|++..|+..|-.-.+++...+..++..+...|...++          +... ...+--|...
T Consensus        86 ~~Gdp~LH~~~a~~~~~e~~~~~A~~Hfl~~~~~~~~~~~~ll~~~~~~~~~~e~----------dlfi-~RaVL~yL~l  154 (260)
T PF04190_consen   86 KFGDPELHHLLAEKLWKEGNYYEAERHFLLGTDPSAFAYVMLLEEWSTKGYPSEA----------DLFI-ARAVLQYLCL  154 (260)
T ss_dssp             TT--HHHHHHHHHHHHHTT-HHHHHHHHHTS-HHHHHHHHHHHHHHHHHTSS--H----------HHHH-HHHHHHHHHT
T ss_pred             CCCCHHHHHHHHHHHHhhccHHHHHHHHHhcCChhHHHHHHHHHHHHHhcCCcch----------hHHH-HHHHHHHHHh
Confidence            3456778888888888888888888877655544444443344433333333322          1111 1223345556


Q ss_pred             CCHHHHHHHHHHHHhc
Q 039362          174 GDYKEALVIFEEMRDV  189 (440)
Q Consensus       174 ~~~~~a~~~~~~~~~~  189 (440)
                      ++...|...+....+.
T Consensus       155 ~n~~~A~~~~~~f~~~  170 (260)
T PF04190_consen  155 GNLRDANELFDTFTSK  170 (260)
T ss_dssp             TBHHHHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHH
Confidence            7777777776665443

; PDB: 3LKU_E 2WPV_G.

>COG5159 RPN6 26S proteasome regulatory complex component [Posttranslational modification, protein turnover, chaperones]

Probab=81.20  E-value=23  Score=29.93  Aligned_cols=33  Identities=12%  Similarity=0.238  Sum_probs=21.4

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHcCCCccHhhH
Q 039362          269 MIGGLAMHGFVKESLELFTEMQIVGITPDEITF  301 (440)
Q Consensus       269 l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~  301 (440)
                      +..-..+.+++++|+..+.+....|+..+..+.
T Consensus         9 ~a~~~v~~~~~~~ai~~yk~iL~kg~s~dek~~   41 (421)
T COG5159           9 LANNAVKSNDIEKAIGEYKRILGKGVSKDEKTL   41 (421)
T ss_pred             HHHHhhhhhhHHHHHHHHHHHhcCCCChhhhhh
Confidence            334455667777777777777777766666543

>KOG4642 consensus Chaperone-dependent E3 ubiquitin protein ligase (contains TPR repeats) [Posttranslational modification, protein turnover, chaperones]

Probab=81.03  E-value=30  Score=28.52  Aligned_cols=83  Identities=10%  Similarity=-0.092  Sum_probs=43.6

Q ss_pred             HHhcCChHHHHHHHHHHHHcCCCCch-hhHHHHHHHHHhcCCHHHHHHHHhhhhhcCCchhhH-HHHHHHHHhcCChHHH
Q 039362          205 CAHLGALDQGRMMLRYMIDKGLSLTL-PLQTSLIDMYAKCGAIKEALIVFHGVEKHQSDVLIW-NAMIGGLAMHGFVKES  282 (440)
Q Consensus       205 ~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~-~~l~~~~~~~~~~~~a  282 (440)
                      |....+++.|+..|.+....  .|+. .-|..=+.++.+..+++.+..--.+..+..||..-- -.+...+.....++.|
T Consensus        20 ~f~~k~y~~ai~~y~raI~~--nP~~~~Y~tnralchlk~~~~~~v~~dcrralql~~N~vk~h~flg~~~l~s~~~~ea   97 (284)
T KOG4642|consen   20 CFIPKRYDDAIDCYSRAICI--NPTVASYYTNRALCHLKLKHWEPVEEDCRRALQLDPNLVKAHYFLGQWLLQSKGYDEA   97 (284)
T ss_pred             ccchhhhchHHHHHHHHHhc--CCCcchhhhhHHHHHHHhhhhhhhhhhHHHHHhcChHHHHHHHHHHHHHHhhccccHH
Confidence            33444566666655554443  2333 334555555666666666666555555555554332 2233344555566666


Q ss_pred             HHHHHHH
Q 039362          283 LELFTEM  289 (440)
Q Consensus       283 ~~~~~~m  289 (440)
                      +..+.+.
T Consensus        98 I~~Lqra  104 (284)
T KOG4642|consen   98 IKVLQRA  104 (284)
T ss_pred             HHHHHHH
Confidence            6666655

>PF14669 Asp_Glu_race_2: Putative aspartate racemase

Probab=80.84  E-value=26  Score=27.68  Aligned_cols=54  Identities=17%  Similarity=0.282  Sum_probs=30.2

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHcCC--------------CCchhhHHHHHHHHHhcCCHHHHHHHHh
Q 039362          201 VLCACAHLGALDQGRMMLRYMIDKGL--------------SLTLPLQTSLIDMYAKCGAIKEALIVFH  254 (440)
Q Consensus       201 l~~~~~~~~~~~~a~~~~~~~~~~~~--------------~~~~~~~~~l~~~~~~~g~~~~A~~~~~  254 (440)
                      ++-.|-+..++.++.++++.+.+..+              .+.-.+.+.....+.+.|.++.|+.+++
T Consensus       138 ~m~~Yhk~~qW~KGrkvLd~l~el~i~ft~LKGL~g~e~~asrCqivn~AaEiFL~sgsidGA~~vLr  205 (233)
T PF14669_consen  138 LMYSYHKTLQWSKGRKVLDKLHELQIHFTSLKGLTGPEKLASRCQIVNIAAEIFLKSGSIDGALWVLR  205 (233)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhhhhhccCccCccccCchhhhHHHHHHHHHHcCCchHHHHHHh
Confidence            44455566666777777766655432              2223344555555566666666665555

>PRK15180 Vi polysaccharide biosynthesis protein TviD; Provisional

Probab=80.65  E-value=46  Score=30.52  Aligned_cols=113  Identities=8%  Similarity=-0.003  Sum_probs=64.7

Q ss_pred             chhcHHHHHH-HHHHHHHcCCCCcHHHHHHHHHHHHhcCCHHHHHHHhhCCCC---CchhhHHHHHHHHHhcCChHHHHH
Q 039362           75 RLAKRELAVA-VHAQIAKTGYESDLFISNSLIHMYGSCGDIVYAREVFDGMPT---KMSVSWNSMLDGYAKCGEMNMARQ  150 (440)
Q Consensus        75 ~~~~~~~a~~-~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~  150 (440)
                      ..|+...|-+ ++..+....-.|+.....  .......|+++.+.+.+.....   ....+...+++...+.|++++|..
T Consensus       301 ~~gd~~aas~~~~~~lr~~~~~p~~i~l~--~~i~~~lg~ye~~~~~~s~~~~~~~s~~~~~~~~~r~~~~l~r~~~a~s  378 (831)
T PRK15180        301 ADGDIIAASQQLFAALRNQQQDPVLIQLR--SVIFSHLGYYEQAYQDISDVEKIIGTTDSTLRCRLRSLHGLARWREALS  378 (831)
T ss_pred             hccCHHHHHHHHHHHHHhCCCCchhhHHH--HHHHHHhhhHHHHHHHhhchhhhhcCCchHHHHHHHhhhchhhHHHHHH
Confidence            3455554443 333333332233333333  3345667888888887765543   355567778888888888888888


Q ss_pred             HHhhCCCC---chhhHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 039362          151 VFELMPER---NVVSWSALIDGYVKCGDYKEALVIFEEMRDV  189 (440)
Q Consensus       151 ~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  189 (440)
                      +-..|...   +...........-..|-++++...++++...
T Consensus       379 ~a~~~l~~eie~~ei~~iaa~sa~~l~~~d~~~~~wk~~~~~  420 (831)
T PRK15180        379 TAEMMLSNEIEDEEVLTVAAGSADALQLFDKSYHYWKRVLLL  420 (831)
T ss_pred             HHHHHhccccCChhheeeecccHHHHhHHHHHHHHHHHHhcc
Confidence            77766542   2222222223334456677777777776544

>KOG2471 consensus TPR repeat-containing protein [General function prediction only]

Probab=80.52  E-value=48  Score=30.58  Aligned_cols=44  Identities=14%  Similarity=-0.004  Sum_probs=32.9

Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHhcCCCCCchHHHHHHHHHhc
Q 039362          369 GSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIF  412 (440)
Q Consensus       369 ~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~  412 (440)
                      ....-.+...|++-.|.+.|.+.......+|..|..++.+|.-.
T Consensus       339 YNcG~~~Lh~grPl~AfqCf~~av~vfh~nPrlWLRlAEcCima  382 (696)
T KOG2471|consen  339 YNCGLLYLHSGRPLLAFQCFQKAVHVFHRNPRLWLRLAECCIMA  382 (696)
T ss_pred             HhhhHHHHhcCCcHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Confidence            34445567788888888888888888878888888888877643

>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]

Probab=80.18  E-value=50  Score=30.65  Aligned_cols=177  Identities=11%  Similarity=0.072  Sum_probs=123.3

Q ss_pred             chhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHH
Q 039362          159 NVVSWSALIDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLID  238 (440)
Q Consensus       159 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  238 (440)
                      |.....+++..+..+.++.-+..+..+|...|  .+...|..++.+|... ..+.-..+++++.+.. -.|...-..|+.
T Consensus        65 ~d~~l~~~~~~f~~n~k~~~veh~c~~~l~~~--e~kmal~el~q~y~en-~n~~l~~lWer~ve~d-fnDvv~~ReLa~  140 (711)
T COG1747          65 DDSCLVTLLTIFGDNHKNQIVEHLCTRVLEYG--ESKMALLELLQCYKEN-GNEQLYSLWERLVEYD-FNDVVIGRELAD  140 (711)
T ss_pred             cchHHHHHHHHhccchHHHHHHHHHHHHHHhc--chHHHHHHHHHHHHhc-CchhhHHHHHHHHHhc-chhHHHHHHHHH
Confidence            55567778888999999999999999998864  5677888999999887 6788889999998876 345555566666


Q ss_pred             HHHhcCCHHHHHHHHhhhhhc-CC---c---hhhHHHHHHHHHhcCChHHHHHHHHHHHHc-CCCccHhhHHHHHHHHHc
Q 039362          239 MYAKCGAIKEALIVFHGVEKH-QS---D---VLIWNAMIGGLAMHGFVKESLELFTEMQIV-GITPDEITFLGLLSACAH  310 (440)
Q Consensus       239 ~~~~~g~~~~A~~~~~~~~~~-~~---~---~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~-~~~p~~~~~~~l~~~~~~  310 (440)
                      .|-+ ++.+++..+|.++... -|   +   ...|..+...  -..+.+....+..+.... |...-...+..+-..|..
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-IKKSKAAEFFGKALYRFIPRRQNAAIKEVWEKLPEL--IGDDKDFFLRLQKKIQTKLGEGRGSVLMQDVYKKYSE  217 (711)
T ss_pred             HHHH-hchhhHHHHHHHHHHHhcchhhhhhHHHHHHHHHHh--ccccHHHHHHHHHHHHHhhccchHHHHHHHHHHHhcc
Confidence            6665 8888888888887643 11   1   1245555442  134666667666666543 333334556666677888


Q ss_pred             CCChHHHHHHHHHHhhcCCCCCcchHHHHHHHH
Q 039362          311 GGLVMEAWYFFKSLGKRGMVPKSEHYACMVDAL  343 (440)
Q Consensus       311 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  343 (440)
                      ..++.+|++++..+.+.. ..|...-..++..+
T Consensus       218 ~eN~~eai~Ilk~il~~d-~k~~~ar~~~i~~l  249 (711)
T COG1747         218 NENWTEAIRILKHILEHD-EKDVWARKEIIENL  249 (711)
T ss_pred             ccCHHHHHHHHHHHhhhc-chhhhHHHHHHHHH
Confidence            889999999999888864 23544445555544

---

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	440
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	5e-13
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	6e-12
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	5e-08
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	8e-06
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-05
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	8e-04
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	9e-04

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 70.6 bits (171), Expect = 5e-13
 Identities = 28/195 (14%), Positives = 62/195 (31%), Gaps = 6/195 (3%)

Query: 177 KEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSL 236
           + A  + +  R       E  L  +L       +LD  +          LS       + 
Sbjct: 74  QMAGCLEDCTRQAPESPWEEQLARLLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQRLLAF 133

Query: 237 IDMYAKCGAIKEALIVFHGVEKHQS-----DVLIWNAMIGGLAMHGFVKESLELFTEMQI 291
                    +  A  +       +       + ++NA++ G A  G  KE + +   ++ 
Sbjct: 134 FKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKD 193

Query: 292 VGITPDEITFLGLLSACAHGGLVMEA-WYFFKSLGKRGMVPKSEHYACMVDALSRAGQVT 350
            G+TPD +++   L                 + + + G+  ++   A ++    RA  + 
Sbjct: 194 AGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLK 253

Query: 351 EAYEFICQMPLEPTA 365
             ++      L P  
Sbjct: 254 AVHKVKPTFSLPPQL 268

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 67.1 bits (162), Expect = 6e-12
 Identities = 49/410 (11%), Positives = 107/410 (26%), Gaps = 49/410 (11%)

Query: 54  MLRAGVSPDHLTYPFLAKASGRLAKRELAVAVHAQIAKTGYESDLFISNSLIHMYGSCGD 113
             +A  SP       L + +      ++  A   Q ++           +          
Sbjct: 83  TRQAPESPWEEQLARLLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQRLLAFFKCCLLTDQ 142

Query: 114 IVYAREVFDGMPTKMS-------VSWNSMLDGYAKCGEMNMARQVFELMPER----NVVS 162
           +  A  +      +           +N+++ G+A+ G       V  ++ +     +++S
Sbjct: 143 LPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLS 202

Query: 163 WSALIDGYVKCGDYKEALV-IFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYM 221
           ++A +    +       +    E+M   G K   +    +L        L     +    
Sbjct: 203 YAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKVKPTF 262

Query: 222 IDKGLSLTLPLQTSLI-DMYAKCGAIKEALIVFHGVEKHQSDVLIWNAMIGGLAMHGFVK 280
                       + L+ D+YAK G +    +               +             
Sbjct: 263 SLPPQLPPPVNTSKLLRDVYAKDGRVSYPKLHLPLKTLQCLFEKQLH------------- 309

Query: 281 ESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMV 340
             +EL + + +V +    +    +  A      + + W        R +          V
Sbjct: 310 --MELASRVCVVSVEKPTLPSKEVKHARKTLKTLRDQWE---KALCRALRETKNRLEREV 364

Query: 341 DALSRAGQVTEAYEFICQMPLEPTASM-LGSLLTGCMNHGKL-----DLAEIVGKKLVEL 394
                       Y F+C +       M L  L               +L+     + V  
Sbjct: 365 -----YEGRFSLYPFLCLLDEREVVRMLLQVLQALPAQGESFTTLARELSARTFSRHVVQ 419

Query: 395 QPDHDGRYVGLSNVYAIFKRW-------DEARTTREAMETRGVKKYPGWS 437
           +    G+   L N Y  +           E    R+  E  G  +     
Sbjct: 420 RQRVSGQVQALQNHYRKYLCLLASDAEVPEPCLPRQYWEALGAPEALREQ 469

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 54.4 bits (129), Expect = 5e-08
 Identities = 23/165 (13%), Positives = 55/165 (33%), Gaps = 13/165 (7%)

Query: 4   FSALSYLGNIDYSCKVLSHLSN-------PRIFYWNTVIRGYSKSKNPNKSISLFVKMLR 56
           F        +  +  +L              +  +N V+ G+++     + + +   +  
Sbjct: 134 FKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKD 193

Query: 57  AGVSPDHLTYPFLAKASGRLAKRELAVA-VHAQIAKTGYESDLFISNSLIHMYGSCGDIV 115
           AG++PD L+Y    +  GR  +    +     Q+++ G +     +  L+        + 
Sbjct: 194 AGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLK 253

Query: 116 YAREVFDGM-----PTKMSVSWNSMLDGYAKCGEMNMARQVFELM 155
              +V               +   + D YAK G ++  +    L 
Sbjct: 254 AVHKVKPTFSLPPQLPPPVNTSKLLRDVYAKDGRVSYPKLHLPLK 298

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 47.5 bits (112), Expect = 8e-06
 Identities = 69/536 (12%), Positives = 141/536 (26%), Gaps = 187/536 (34%)

Query: 10  LGNIDYSCK-VLSHLSN--------------PRIFYWNTVIRGYSKSKNP-NKSISLFVK 53
            G   Y  K +LS   +              P+       I     SK+  + ++ LF  
Sbjct: 11  TGEHQYQYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWT 70

Query: 54  MLRAG--------VSPDHLTYPFLAKA-----SGRLAKRELAVAVHAQIAKTGYE-SDLF 99
           +L                + Y FL                + +    ++       +   
Sbjct: 71  LLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYN 130

Query: 100 IS---------NSL----------IH-MYGSCGDIVYAREV--FDGMPTKMS--VSWNSM 135
           +S          +L          I  + G  G    A +V     +  KM   + W ++
Sbjct: 131 VSRLQPYLKLRQALLELRPAKNVLIDGVLG-SGKTWVALDVCLSYKVQCKMDFKIFWLNL 189

Query: 136 LDGYAKCGEMNMARQVFELM--------------------PERNVVSWSALIDGYVKCGD 175
                     N    V E++                     +  + S  A +   +K   
Sbjct: 190 -------KNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKP 242

Query: 176 YKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQG-RMML--RYMIDKGLSLTLPL 232
           Y+  L++   + +V +                  A +   +++L  R    K ++  L  
Sbjct: 243 YENCLLV---LLNVQNA-------------KAWNAFNLSCKILLTTR---FKQVTDFLS- 282

Query: 233 QTSLIDMYAKCGAIKEALIVFHGVEKHQSDVLIWNAMIGGLAMHGFVK-ESLELFTEMQI 291
                           A    H    H S                    E   L    + 
Sbjct: 283 ----------------AATTTHISLDHHSM--------------TLTPDEVKSLLL--KY 310

Query: 292 VGITPDEI---------TFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDA 342
           +   P ++           L +++     GL    W  +K            H  C  D 
Sbjct: 311 LDCRPQDLPREVLTTNPRRLSIIAESIRDGLAT--WDNWK------------HVNC--DK 354

Query: 343 LSRAGQVT----------EAYEFICQMPLE---PTA--SML-GSLLTGCMNHGKLDLAEI 386
           L+   + +          + ++ +   P     PT   S++   ++   +    + + ++
Sbjct: 355 LTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDV---MVVVNKL 411

Query: 387 VGKKLVELQPDHDGRYVGLSNVYAIFKRWDEARTT--REAMET-RGVKKYPGWSFV 439
               LVE QP  +     + ++Y   K   E      R  ++     K +     +
Sbjct: 412 HKYSLVEKQPK-ESTI-SIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLI 465

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 47.2 bits (111), Expect = 1e-05
 Identities = 56/426 (13%), Positives = 118/426 (27%), Gaps = 145/426 (34%)

Query: 14  DYSCKVLSHLSNPRIFYWNTVI-RGYSKSKNPNKSISLFVKMLRAGVSPDHLTYPFLAKA 72
           + SCK+L             +  R         K ++ F       +S    T+  L   
Sbjct: 263 NLSCKIL-------------LTTR--------FKQVTDF-------LSAATTTHISLDHH 294

Query: 73  SGRLAKRELAVAVHAQIAKTGYESDLFISNSLIHMYGSCGDIVYAREVFDGMPTKMSVSW 132
           S  L   E+                L +    +       D+   REV    P ++S+  
Sbjct: 295 SMTLTPDEVK--------------SLLLKY--LDC--RPQDL--PREVLTTNPRRLSIIA 334

Query: 133 NSMLDG--------YAKCGEMNMARQVF--ELMPERNVVSWSALIDGYVKCGDYK---EA 179
            S+ DG        +  C ++    +     L P                  +Y+   + 
Sbjct: 335 ESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPA-----------------EYRKMFDR 377

Query: 180 LVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDM 239
           L +F            +    +L             +++  +             SL++ 
Sbjct: 378 LSVFPP--SA-----HIPT-ILLSLIWFDVIKSDVMVVVNKLHKY----------SLVEK 419

Query: 240 YAKCGAIKEALIVFHGV---EKHQSDVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITP 296
                  KE+ I    +    K + +           A+H  + +   +        + P
Sbjct: 420 QP-----KESTISIPSIYLELKVKLENEY--------ALHRSIVDHYNIPKTFDSDDLIP 466

Query: 297 DEI-----TFLGL-LSACAHGGLV--MEAWYF-FKSLGK--RGMVPKSEHYACMVDALSR 345
             +     + +G  L    H   +      +  F+ L +  R           +++ L  
Sbjct: 467 PYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTL-- 524

Query: 346 AGQVTEAYE-FICQMPLEPTAS-MLGSLLTGCMNHGK-------LDLAEIVGKKLVELQP 396
             Q  + Y+ +IC    +P    ++ ++L       +        DL  I       L  
Sbjct: 525 --QQLKFYKPYIC--DNDPKYERLVNAILDFLPKIEENLICSKYTDLLRIA------LMA 574

Query: 397 DHDGRY 402
           + +  +
Sbjct: 575 EDEAIF 580

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7 Length = 308

 Score = 40.0 bits (93), Expect = 8e-04
 Identities = 24/159 (15%), Positives = 54/159 (33%), Gaps = 7/159 (4%)

Query: 40  KSKNPNKSISLFVKMLRAGVSPDHLTYPFLAKASGRLAKRELAVAVHAQIAKTGYESDLF 99
                +++ +++ + +   +  + L Y   A       K E   +++ ++          
Sbjct: 76  AKLFSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTL 135

Query: 100 ISNSLIHMYGSCGDIVYAREVFD----GMPTKMSVSWNSMLDGYAKCGEMNMARQVFELM 155
           +    +        I   R +F        T+  V   + L  Y    + ++A ++FEL 
Sbjct: 136 VYIQYMKFARRAEGIKSGRMIFKKAREDARTRHHVYVTAALMEYYCSKDKSVAFKIFELG 195

Query: 156 PER---NVVSWSALIDGYVKCGDYKEALVIFEEMRDVGS 191
            ++         A ID      +     V+FE +   GS
Sbjct: 196 LKKYGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGS 234

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7 Length = 530

 Score = 40.6 bits (94), Expect = 9e-04
 Identities = 22/173 (12%), Positives = 53/173 (30%), Gaps = 9/173 (5%)

Query: 31  WNTVIRGYSKSKNPNKSISLFVKMLRAGVSPDHLTYPFLAKASGRLAKRELAVAVHAQIA 90
                   +     +++ +++ + +   +  + L Y   A       K E   +++ ++ 
Sbjct: 289 LAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLL 348

Query: 91  KTGYESDLFISNSLIHMYGSCGDIVYAREVFDGMPTKMSVSWNSMLDGYAK-----CGEM 145
                    +    +        I   R +F           +  +   A        + 
Sbjct: 349 AIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDARTRHHVYVT-AALMEYYCSKDK 407

Query: 146 NMARQVFELMPER---NVVSWSALIDGYVKCGDYKEALVIFEEMRDVGSKANE 195
           ++A ++FEL  ++         A ID      +     V+FE +   GS   E
Sbjct: 408 SVAFKIFELGLKKYGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPE 460

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	440
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	100.0
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	100.0
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	100.0
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	100.0
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	99.98
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.97
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	99.97
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.96
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.96
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.96
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.95
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.95
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.93
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.92
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.9
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.9
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.9
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.89
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.89
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.89
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.89
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.88
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.88
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.87
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.87
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.85
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.85
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.85
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.85
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.85
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.85
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.83
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.83
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.82
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.79
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.79
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.78
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.77
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.77
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.76
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.75
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.74
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.73
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.73
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.72
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.72
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.72
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.71
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.71
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.71
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.71
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.71
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.71
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.7
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.7
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.7
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.69
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.69
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.68
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.65
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.65
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.64
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.64
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.63
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.63
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.62
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.61
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.61
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.6
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.59
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.59
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.57
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.57
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.55
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.54
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.53
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.53
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.51
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.51
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.5
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.49
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.47
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.44
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.43
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.42
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.41
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.39
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.37
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.36
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.36
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.34
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	99.3
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	99.29
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	99.26
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.26
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	99.25
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	99.25
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	99.24
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.24
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.21
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	99.21
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	99.21
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	99.2
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	99.2
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	99.19
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	99.19
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	99.18
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	99.15
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	99.15
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	99.15
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	99.13
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	99.13
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	99.13
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	99.12
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	99.09
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	99.08
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	99.06
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	99.06
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	99.05
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	99.02
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	99.0
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.97
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.96
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.95
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.94
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.94
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.94
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.93
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.91
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.9
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.89
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.88
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.87
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.86
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.86
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.86
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.86
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.85
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.84
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.82
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.82
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.82
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.81
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.8
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.79
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.78
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.78
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.78
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.78
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.77
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.77
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.76
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.75
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.74
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.73
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.72
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.71
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.7
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.7
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.7
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.69
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.69
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.69
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.68
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.67
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.65
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.65
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.62
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	98.62
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.6
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.6
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.59
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.57
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.57
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.56
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	98.55
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.54
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.53
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.52
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.51
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.49
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.48
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.46
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	98.45
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	98.44
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	98.42
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.39
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.36
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.34
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.33
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	98.31
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.29
2l6j_A	111	TPR repeat-containing protein associated with HSP;	98.29
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	98.27
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	98.27
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	98.25
2kat_A	115	Uncharacterized protein; NESG, structure, structur	98.19
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	98.16
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	98.14
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	98.12
2l6j_A	111	TPR repeat-containing protein associated with HSP;	98.07
1klx_A	138	Cysteine rich protein B; structural genomics, heli	98.02
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	98.01
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	97.99
1klx_A	138	Cysteine rich protein B; structural genomics, heli	97.91
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	97.9
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	97.86
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	97.86
2kat_A	115	Uncharacterized protein; NESG, structure, structur	97.84
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	97.83
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	97.77
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	97.72
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	97.68
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	97.65
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	97.57
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	97.57
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	97.42
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	97.41
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	97.38
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	97.37
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	97.27
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	97.26
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	97.2
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	97.15
1pc2_A	152	Mitochondria fission protein; unknown function; NM	97.11
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	97.02
1pc2_A	152	Mitochondria fission protein; unknown function; NM	96.94
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	96.93
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	96.8
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	96.29
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	96.25
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	96.18
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	96.05
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	96.02
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	96.01
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	96.0
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	95.82
1qsa_A	618	Protein (soluble lytic transglycosylase SLT70); al	95.73
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	95.72
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	95.1
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	94.63
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	94.6
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	94.25
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	94.14
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	93.88
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	93.55
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	93.25
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	93.24
2wpv_A	312	GET4, UPF0363 protein YOR164C; golgi-ER traffickin	92.92
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	92.64
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	92.62
3lpz_A	336	GET4 (YOR164C homolog); protein targeting, tail-an	92.57
3ltm_A	211	Alpha-REP4; protein engineering, heat-like repeat,	92.53
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	92.25
1zbp_A	273	Hypothetical protein VPA1032; alpha-beta protein,	91.93
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	91.81
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	91.62
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	91.13
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	90.3
1zbp_A	273	Hypothetical protein VPA1032; alpha-beta protein,	89.95
2uwj_G	115	Type III export protein PSCG; virulence, chaperone	89.93
3lpz_A	336	GET4 (YOR164C homolog); protein targeting, tail-an	89.9
2p58_C	116	Putative type III secretion protein YSCG; type III	89.53
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	89.51
3ltm_A	211	Alpha-REP4; protein engineering, heat-like repeat,	88.76
3esl_A	202	Checkpoint serine/threonine-protein kinase BUB1; m	87.88
3ltj_A	201	Alpharep-4; protein engineering, heat-like repeat,	87.58
4b4t_R	429	RPN7, 26S proteasome regulatory subunit RPN7; hydr	87.5
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	87.44
2wpv_A	312	GET4, UPF0363 protein YOR164C; golgi-ER traffickin	85.87
3ltj_A	201	Alpharep-4; protein engineering, heat-like repeat,	85.25
4a1g_A	152	Mitotic checkpoint serine/threonine-protein kinas;	84.64
2wvi_A	164	Mitotic checkpoint serine/threonine-protein kinase	81.98
1oyz_A	280	Hypothetical protein YIBA; structural genomics, PS	81.49
3txn_A	394	26S proteasome regulatory complex subunit P42B; PC	81.12
4b4t_R	429	RPN7, 26S proteasome regulatory subunit RPN7; hydr	80.42

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=100.00  E-value=4.8e-41  Score=319.84  Aligned_cols=412  Identities=11%  Similarity=-0.035  Sum_probs=318.6

Q ss_pred             CChhhHHHHhhhcCCCChHHHHHHHHHHHccCChhhHHHHHHHHHHcCCCCCcchHHHHHHHhhchhcHHHHHHHHHHHH
Q 039362           11 GNIDYSCKVLSHLSNPRIFYWNTVIRGYSKSKNPNKSISLFVKMLRAGVSPDHLTYPFLAKASGRLAKRELAVAVHAQIA   90 (440)
Q Consensus        11 g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~   90 (440)
                      |.+..+...+...+.+++..|+.++..+.+.|++++|+.+|++|..  ..|+..++..++.+|.+.|++++|..+++.+.
T Consensus        67 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~--~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  144 (597)
T 2xpi_A           67 GSFLKERNAQNTDSLSREDYLRLWRHDALMQQQYKCAAFVGEKVLD--ITGNPNDAFWLAQVYCCTGDYARAKCLLTKED  144 (597)
T ss_dssp             ---------------CHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HHCCHHHHHHHHHHHHHTTCHHHHHHHHHHTC
T ss_pred             CccCCCCCccccchHHHHHHHHHHHHHHHHccCchHHHHHHHHHHh--hCCCchHHHHHHHHHHHcCcHHHHHHHHHHHh
Confidence            4555555555555556666666666666666666666666666664  34555666666666666666666666666654


Q ss_pred             HcCCCCcHHHHHHHHHHHHhcCCHHHHHHHhhCCCCC-------------------chhhHHHHHHHHHhcCChHHHHHH
Q 039362           91 KTGYESDLFISNSLIHMYGSCGDIVYAREVFDGMPTK-------------------MSVSWNSMLDGYAKCGEMNMARQV  151 (440)
Q Consensus        91 ~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-------------------~~~~~~~l~~~~~~~~~~~~a~~~  151 (440)
                      ..  +++..+++.++.+|.+.|++++|.++|+++...                   +..+|+.++.+|.+.|++++|++.
T Consensus       145 ~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  222 (597)
T 2xpi_A          145 LY--NRSSACRYLAAFCLVKLYDWQGALNLLGETNPFRKDEKNANKLLMQDGGIKLEASMCYLRGQVYTNLSNFDRAKEC  222 (597)
T ss_dssp             GG--GTCHHHHHHHHHHHHHTTCHHHHHHHHCSSCTTC----------CCCSSCCHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             cc--ccchhHHHHHHHHHHHHhhHHHHHHHHhccCCccccccccccccccccccchhHHHHHHHHHHHHHcCCHHHHHHH
Confidence            32  445666666666666666666666666643322                   245666666666666666666655


Q ss_pred             HhhC------------------------------------------------------------------------CC--
Q 039362          152 FELM------------------------------------------------------------------------PE--  157 (440)
Q Consensus       152 ~~~~------------------------------------------------------------------------~~--  157 (440)
                      |+++                                                                        .+  
T Consensus       223 ~~~~~~~~p~~~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~  302 (597)
T 2xpi_A          223 YKEALMVDAKCYEAFDQLVSNHLLTADEEWDLVLKLNYSTYSKEDAAFLRSLYMLKLNKTSHEDELRRAEDYLSSINGLE  302 (597)
T ss_dssp             HHHHHHHCTTCHHHHHHHHHTTCSCHHHHHHHHHHSCTHHHHGGGHHHHHHHHHTTSCTTTTHHHHHHHHHHHHTSTTGG
T ss_pred             HHHHHHhCchhhHHHHHHHHhhcccchhHHHHHHhcCCcccccchHHHHHHHHHHHHHHHcCcchHHHHHHHHHHhhcCC
Confidence            5544                                                                        33  


Q ss_pred             CchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHH
Q 039362          158 RNVVSWSALIDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLI  237 (440)
Q Consensus       158 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  237 (440)
                      ++..+|+.++..|.+.|++++|.++|+++.+.+ +.+..++..++.++.+.|++++|..+++.+.+.. +.+..++..++
T Consensus       303 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~  380 (597)
T 2xpi_A          303 KSSDLLLCKADTLFVRSRFIDVLAITTKILEID-PYNLDVYPLHLASLHESGEKNKLYLISNDLVDRH-PEKAVTWLAVG  380 (597)
T ss_dssp             GCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHhcCHHHHHHHHHHHHHcC-cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhC-cccHHHHHHHH
Confidence            456677888888888899999999998888765 4467788888888888999999999998888665 67788999999


Q ss_pred             HHHHhcCCHHHHHHHHhhhhhcCC-chhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHH
Q 039362          238 DMYAKCGAIKEALIVFHGVEKHQS-DVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVME  316 (440)
Q Consensus       238 ~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~  316 (440)
                      .+|.+.|++++|..+|+++.+..| +..+|+.++..|.+.|++++|+++|+++.+.+ +.+..++..++.+|.+.|++++
T Consensus       381 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~  459 (597)
T 2xpi_A          381 IYYLCVNKISEARRYFSKSSTMDPQFGPAWIGFAHSFAIEGEHDQAISAYTTAARLF-QGTHLPYLFLGMQHMQLGNILL  459 (597)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT-TTCSHHHHHHHHHHHHHTCHHH
T ss_pred             HHHHHhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCCHHH
Confidence            999999999999999999987766 57799999999999999999999999998875 5577899999999999999999


Q ss_pred             HHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcC-------CCCcc--HhHHHHHHHHHHhcCChhHHHHH
Q 039362          317 AWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQM-------PLEPT--ASMLGSLLTGCMNHGKLDLAEIV  387 (440)
Q Consensus       317 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-------~~~p~--~~~~~~l~~~~~~~g~~~~a~~~  387 (440)
                      |.++|+++.+.. +.+..+|..++..|.+.|++++|.++|+++       +..|+  ..+|..++.+|.+.|++++|.+.
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            999999998864 336788999999999999999999999988       44777  68999999999999999999999


Q ss_pred             HHHHHhcCCCCCchHHHHHHHHHhccChHHHHHHHHHHHhcCC
Q 039362          388 GKKLVELQPDHDGRYVGLSNVYAIFKRWDEARTTREAMETRGV  430 (440)
Q Consensus       388 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  430 (440)
                      ++++.+.+|+++.+|..++.+|.+.|++++|.+.++++.+...
T Consensus       539 ~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~p  581 (597)
T 2xpi_A          539 LNQGLLLSTNDANVHTAIALVYLHKKIPGLAITHLHESLAISP  581 (597)
T ss_dssp             HHHHHHHSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHhCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHhcCC
Confidence            9999999999999999999999999999999999999988654

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=100.00  E-value=4.8e-40  Score=312.95  Aligned_cols=402  Identities=11%  Similarity=0.003  Sum_probs=350.8

Q ss_pred             ccccccccCChhhHHHHhhhc--CCCChHHHHHHHHHHHccCChhhHHHHHHHHHHc---------------CCCCCcch
Q 039362            3 SFSALSYLGNIDYSCKVLSHL--SNPRIFYWNTVIRGYSKSKNPNKSISLFVKMLRA---------------GVSPDHLT   65 (440)
Q Consensus         3 ~~y~~~~~g~~~~A~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---------------~~~~~~~~   65 (440)
                      ..|..+  |++++|..+|+.+  .+++..+++.++..|.+.|++++|+++|+++...               +.+++..+
T Consensus       125 ~~~~~~--g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  202 (597)
T 2xpi_A          125 QVYCCT--GDYARAKCLLTKEDLYNRSSACRYLAAFCLVKLYDWQGALNLLGETNPFRKDEKNANKLLMQDGGIKLEASM  202 (597)
T ss_dssp             HHHHHT--TCHHHHHHHHHHTCGGGTCHHHHHHHHHHHHHTTCHHHHHHHHCSSCTTC----------CCCSSCCHHHHH
T ss_pred             HHHHHc--CcHHHHHHHHHHHhccccchhHHHHHHHHHHHHhhHHHHHHHHhccCCccccccccccccccccccchhHHH
Confidence            456666  8999999999887  4778889999999999999999999999853211               12234678


Q ss_pred             HHHHHHHhhchhcHHHHHHHHHHHHHcCCCCcHHHHHHH--------------------------------------HHH
Q 039362           66 YPFLAKASGRLAKRELAVAVHAQIAKTGYESDLFISNSL--------------------------------------IHM  107 (440)
Q Consensus        66 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l--------------------------------------~~~  107 (440)
                      |..++.+|.+.|++++|.++|+++.+.++. +...+..+                                      +..
T Consensus       203 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~-~~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~  281 (597)
T 2xpi_A          203 CYLRGQVYTNLSNFDRAKECYKEALMVDAK-CYEAFDQLVSNHLLTADEEWDLVLKLNYSTYSKEDAAFLRSLYMLKLNK  281 (597)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHTTCSCHHHHHHHHHHSCTHHHHGGGHHHHHHHHHTTSCT
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhCch-hhHHHHHHHHhhcccchhHHHHHHhcCCcccccchHHHHHHHHHHHHHH
Confidence            999999999999999999999999887643 33333333                                      455


Q ss_pred             HHhcCCHHHHHHHhhCCCC--CchhhHHHHHHHHHhcCChHHHHHHHhhCCC---CchhhHHHHHHHHHhcCCHHHHHHH
Q 039362          108 YGSCGDIVYAREVFDGMPT--KMSVSWNSMLDGYAKCGEMNMARQVFELMPE---RNVVSWSALIDGYVKCGDYKEALVI  182 (440)
Q Consensus       108 ~~~~g~~~~a~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~  182 (440)
                      |.+.|++++|.++|+++.+  ++..+|+.++.+|.+.|++++|.++|+++.+   .+..+++.++.++.+.|++++|..+
T Consensus       282 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  361 (597)
T 2xpi_A          282 TSHEDELRRAEDYLSSINGLEKSSDLLLCKADTLFVRSRFIDVLAITTKILEIDPYNLDVYPLHLASLHESGEKNKLYLI  361 (597)
T ss_dssp             TTTHHHHHHHHHHHHTSTTGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCCTTHHHHHHHHHHHTCHHHHHHH
T ss_pred             HcCcchHHHHHHHHHHhhcCCchHHHHHHHHHHHHHhcCHHHHHHHHHHHHHcCcccHHHHHHHHHHHHHhCCHHHHHHH
Confidence            6678899999999999987  7888999999999999999999999999864   4678899999999999999999999


Q ss_pred             HHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCC-
Q 039362          183 FEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQS-  261 (440)
Q Consensus       183 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-  261 (440)
                      ++++.... +.+..++..++..|.+.|++++|.++|+++.+.. +.+..++..++.+|.+.|++++|+.+|+++.+..| 
T Consensus       362 ~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  439 (597)
T 2xpi_A          362 SNDLVDRH-PEKAVTWLAVGIYYLCVNKISEARRYFSKSSTMD-PQFGPAWIGFAHSFAIEGEHDQAISAYTTAARLFQG  439 (597)
T ss_dssp             HHHHHHHC-TTSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTTT
T ss_pred             HHHHHhhC-cccHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcc
Confidence            99998664 5678899999999999999999999999999875 66788999999999999999999999999987766 


Q ss_pred             chhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHhhc----CCCCC--cch
Q 039362          262 DVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKR----GMVPK--SEH  335 (440)
Q Consensus       262 ~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~--~~~  335 (440)
                      +..+|..++.+|.+.|++++|.++|+++.+.. +.+..+|..++..+.+.|++++|.++|+++.+.    +..|+  ..+
T Consensus       440 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~  518 (597)
T 2xpi_A          440 THLPYLFLGMQHMQLGNILLANEYLQSSYALF-QYDPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEKPWAAT  518 (597)
T ss_dssp             CSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSGGGHHH
T ss_pred             chHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccchhhHHHH
Confidence            78899999999999999999999999999875 557889999999999999999999999999886    55777  678


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHhcC-CCCc-cHhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCCchHHHHHHHHH
Q 039362          336 YACMVDALSRAGQVTEAYEFICQM-PLEP-TASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYA  410 (440)
Q Consensus       336 ~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~  410 (440)
                      |..++.+|.+.|++++|.+.++++ ...| +..+|..++.+|...|++++|.+.++++.+.+|.++..+..++.+|.
T Consensus       519 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~l~~~~~  595 (597)
T 2xpi_A          519 WANLGHAYRKLKMYDAAIDALNQGLLLSTNDANVHTAIALVYLHKKIPGLAITHLHESLAISPNEIMASDLLKRALE  595 (597)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHhcCCCChHHHHHHHHHHh
Confidence            999999999999999999999998 4445 77899999999999999999999999999999999999988887764

>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=100.00  E-value=1.5e-31  Score=240.35  Aligned_cols=374  Identities=12%  Similarity=0.091  Sum_probs=298.8

Q ss_pred             HHHHHccCChhhHHHHHHHHHHcCCCCCcchHHHHHHHhhchhcHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhcCCH
Q 039362           35 IRGYSKSKNPNKSISLFVKMLRAGVSPDHLTYPFLAKASGRLAKRELAVAVHAQIAKTGYESDLFISNSLIHMYGSCGDI  114 (440)
Q Consensus        35 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  114 (440)
                      ...+.+.|++++|+..++.+.+.. +.+...+..+...+...|++++|...++...+.. +.+..++..+..++.+.|++
T Consensus         6 a~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~~~~a~~~~~~a~~~~-p~~~~~~~~lg~~~~~~g~~   83 (388)
T 1w3b_A            6 AHREYQAGDFEAAERHCMQLWRQE-PDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN-PLLAEAYSNLGNVYKERGQL   83 (388)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHCCCH
Confidence            445666777777777777776642 2233445556666677777777777777776654 33666777777777777777


Q ss_pred             HHHHHHhhCCCC--C-chhhHHHHHHHHHhcCChHHHHHHHhhCCC--C-chhhHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 039362          115 VYAREVFDGMPT--K-MSVSWNSMLDGYAKCGEMNMARQVFELMPE--R-NVVSWSALIDGYVKCGDYKEALVIFEEMRD  188 (440)
Q Consensus       115 ~~a~~~~~~~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  188 (440)
                      ++|...|+++..  | +..+|..+..++.+.|++++|.+.|+++.+  | +...+..+...+...|++++|.+.|+++..
T Consensus        84 ~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~  163 (388)
T 1w3b_A           84 QEAIEHYRHALRLKPDFIDGYINLAAALVAAGDMEGAVQAYVSALQYNPDLYCVRSDLGNLLKALGRLEEAKACYLKAIE  163 (388)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHCTTCTHHHHHHHHHHHTTSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            777777776642  2 344677777777777888888877777654  3 345677788888889999999999999887


Q ss_pred             cCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCC-chhhHH
Q 039362          189 VGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQS-DVLIWN  267 (440)
Q Consensus       189 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~  267 (440)
                      .. +.+..++..+...+...|++++|...++++.+.+ +.+...+..+..++...|++++|...|++..+..| +..++.
T Consensus       164 ~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~  241 (388)
T 1w3b_A          164 TQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLD-PNFLDAYINLGNVLKEARIFDRAVAAYLRALSLSPNHAVVHG  241 (388)
T ss_dssp             HC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHCTTCHHHHH
T ss_pred             hC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcCCHHHHH
Confidence            64 4456788888889999999999999999998876 66778888999999999999999999999887777 467888


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcC
Q 039362          268 AMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAG  347 (440)
Q Consensus       268 ~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  347 (440)
                      .+...+...|++++|++.|+++.+.+ +.+..++..+...+.+.|++++|...|+++.+.. +.+..++..+...+...|
T Consensus       242 ~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g  319 (388)
T 1w3b_A          242 NLACVYYEQGLIDLAIDTYRRAIELQ-PHFPDAYCNLANALKEKGSVAEAEDCYNTALRLC-PTHADSLNNLANIKREQG  319 (388)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHTC-SSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTT
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHcC
Confidence            89999999999999999999998864 4456788889999999999999999999998864 346778889999999999


Q ss_pred             CHHHHHHHHhcC-CCCc-cHhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCCchHHHHHHHHHhccC
Q 039362          348 QVTEAYEFICQM-PLEP-TASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKR  414 (440)
Q Consensus       348 ~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  414 (440)
                      ++++|.+.++++ ...| +..++..++..+.+.|++++|...++++++..|.++..+..++.++...|+
T Consensus       320 ~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~p~~~~a~~~lg~~~~~~~~  388 (388)
T 1w3b_A          320 NIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRISPTFADAYSNMGNTLKEMQD  388 (388)
T ss_dssp             CHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTCC
T ss_pred             CHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCHHHHHhHHHHHHHccC
Confidence            999999999988 5555 457888999999999999999999999999999999999999988877663

>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=100.00  E-value=1.8e-30  Score=233.39  Aligned_cols=356  Identities=14%  Similarity=0.091  Sum_probs=313.7

Q ss_pred             HHHHhhchhcHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhcCCHHHHHHHhhCCCC---CchhhHHHHHHHHHhcCCh
Q 039362           69 LAKASGRLAKRELAVAVHAQIAKTGYESDLFISNSLIHMYGSCGDIVYAREVFDGMPT---KMSVSWNSMLDGYAKCGEM  145 (440)
Q Consensus        69 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~  145 (440)
                      +...+.+.|++++|.+.++.+.+..+. +...+..+...+...|++++|...++...+   .+..+|..+...+.+.|++
T Consensus         5 ~a~~~~~~g~~~~A~~~~~~~~~~~p~-~~~~~~~l~~~~~~~~~~~~a~~~~~~a~~~~p~~~~~~~~lg~~~~~~g~~   83 (388)
T 1w3b_A            5 LAHREYQAGDFEAAERHCMQLWRQEPD-NTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQNPLLAEAYSNLGNVYKERGQL   83 (388)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHCCCH
Confidence            345677899999999999999987543 667788888899999999999999987653   3567899999999999999


Q ss_pred             HHHHHHHhhCCC--C-chhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHH
Q 039362          146 NMARQVFELMPE--R-NVVSWSALIDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMI  222 (440)
Q Consensus       146 ~~a~~~~~~~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  222 (440)
                      ++|++.|+++.+  | +..+|..+..++.+.|++++|.+.|+++.+.+ +.+...+..+...+...|++++|...|+++.
T Consensus        84 ~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al  162 (388)
T 1w3b_A           84 QEAIEHYRHALRLKPDFIDGYINLAAALVAAGDMEGAVQAYVSALQYN-PDLYCVRSDLGNLLKALGRLEEAKACYLKAI  162 (388)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHC-TTCTHHHHHHHHHHHTTSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHccCHHHHHHHHHHHH
Confidence            999999999864  4 45679999999999999999999999998874 3345567778888899999999999999999


Q ss_pred             HcCCCCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCCc-hhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhH
Q 039362          223 DKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQSD-VLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITF  301 (440)
Q Consensus       223 ~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~  301 (440)
                      +.. +.+..++..+..++...|++++|...|+++.+..|+ ...+..+...+...|++++|+..+++..... +.+..++
T Consensus       163 ~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~  240 (388)
T 1w3b_A          163 ETQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDPNFLDAYINLGNVLKEARIFDRAVAAYLRALSLS-PNHAVVH  240 (388)
T ss_dssp             HHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHC-TTCHHHH
T ss_pred             HhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cCCHHHH
Confidence            876 667889999999999999999999999999988774 6788899999999999999999999998764 4457788


Q ss_pred             HHHHHHHHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcC-CC-CccHhHHHHHHHHHHhcC
Q 039362          302 LGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQM-PL-EPTASMLGSLLTGCMNHG  379 (440)
Q Consensus       302 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~-~p~~~~~~~l~~~~~~~g  379 (440)
                      ..+...+...|++++|...|+++.+.+ +.+..++..+...+.+.|++++|.+.++++ .. +++..++..++..+...|
T Consensus       241 ~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g  319 (388)
T 1w3b_A          241 GNLACVYYEQGLIDLAIDTYRRAIELQ-PHFPDAYCNLANALKEKGSVAEAEDCYNTALRLCPTHADSLNNLANIKREQG  319 (388)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHTC-SSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTT
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcccHHHHHHHHHHHHHcC
Confidence            999999999999999999999999864 224678899999999999999999999998 33 446788999999999999


Q ss_pred             ChhHHHHHHHHHHhcCCCCCchHHHHHHHHHhccChHHHHHHHHHHHhcC
Q 039362          380 KLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEARTTREAMETRG  429 (440)
Q Consensus       380 ~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  429 (440)
                      ++++|...++++.+..|++..++..++.+|.+.|++++|.+.++++++..
T Consensus       320 ~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~  369 (388)
T 1w3b_A          320 NIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRIS  369 (388)
T ss_dssp             CHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTTC
T ss_pred             CHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence            99999999999999999999999999999999999999999999998754

>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=99.98  E-value=2e-30  Score=236.73  Aligned_cols=185  Identities=16%  Similarity=0.163  Sum_probs=158.4

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCC---------hHHHHHHHHHHHHcCCCCchh
Q 039362          161 VSWSALIDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGA---------LDQGRMMLRYMIDKGLSLTLP  231 (440)
Q Consensus       161 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~---------~~~a~~~~~~~~~~~~~~~~~  231 (440)
                      ..++.+|++|++.|++++|+++|++|.+.|+.||..+|+.+|.+|++.+.         ++.|.++|++|.+.|+.||..
T Consensus        27 ~~l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l~~A~~lf~~M~~~G~~Pd~~  106 (501)
T 4g26_A           27 ALLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQMIVDKVVPNEA  106 (501)
T ss_dssp             HHHHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCHHHHHHHHHHHHHHHTTCCCCHH
T ss_pred             HHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhhhhcchHHHHHHHHHHHHHhCCCCCHH
Confidence            35777888888888888888888888888888888888888888876654         577888888888888888888


Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHhhhhhc--CCchhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHH
Q 039362          232 LQTSLIDMYAKCGAIKEALIVFHGVEKH--QSDVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACA  309 (440)
Q Consensus       232 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~  309 (440)
                      +|+.++.+|++.|++++|.++|++|.+.  .||..+|+.+|.+|++.|++++|.++|++|.+.|+.||..||+.|+.+|+
T Consensus       107 tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~G~~Pd~~ty~~Li~~~~  186 (501)
T 4g26_A          107 TFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHMVESEVVPEEPELAALLKVSM  186 (501)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHh
Confidence            8888888888888888888888888755  68888888888888888888888888888888888888888888888888


Q ss_pred             cCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHh
Q 039362          310 HGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSR  345 (440)
Q Consensus       310 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  345 (440)
                      +.|+.++|.++|++|.+.|..|+..||+.++..|..
T Consensus       187 ~~g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~s  222 (501)
T 4g26_A          187 DTKNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFKS  222 (501)
T ss_dssp             HTTCHHHHHHHHHHHHHHTSSBCHHHHHHHHHHHHS
T ss_pred             hCCCHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHhc
Confidence            888888888888888888888888888888887765

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.97  E-value=7.1e-28  Score=224.85  Aligned_cols=267  Identities=12%  Similarity=-0.033  Sum_probs=204.3

Q ss_pred             hhhHHHHHHHHHh---cCCHHHHHHHHHHHHh-----cCCC--------CCHHHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 039362          160 VVSWSALIDGYVK---CGDYKEALVIFEEMRD-----VGSK--------ANEVTLVSVLCACAHLGALDQGRMMLRYMID  223 (440)
Q Consensus       160 ~~~~~~l~~~~~~---~~~~~~a~~~~~~~~~-----~~~~--------~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  223 (440)
                      ...+......+..   .|++++|...++++..     ....        .+...+..+...+...|++++|...++.+.+
T Consensus       186 ~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~  265 (514)
T 2gw1_A          186 ADKELMNGLSNLYKRSPESYDKADESFTKAARLFEEQLDKNNEDEKLKEKLAISLEHTGIFKFLKNDPLGAHEDIKKAIE  265 (514)
T ss_dssp             HHHHHHHHHHHHSSCCTTHHHHHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHHHHHHHHSSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHhhhhhccCccccccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHh
Confidence            3344444444444   7888888888888876     3111        2244666777788888888888888888887


Q ss_pred             cCCCCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCC-chhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHH
Q 039362          224 KGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQS-DVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFL  302 (440)
Q Consensus       224 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~  302 (440)
                      ... . ...+..++.+|...|++++|...++++....| +...+..+...+...|++++|...++++.+.. +.+...+.
T Consensus       266 ~~~-~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~  342 (514)
T 2gw1_A          266 LFP-R-VNSYIYMALIMADRNDSTEYYNYFDKALKLDSNNSSVYYHRGQMNFILQNYDQAGKDFDKAKELD-PENIFPYI  342 (514)
T ss_dssp             HCC-C-HHHHHHHHHHHHTSSCCTTGGGHHHHHHTTCTTCTHHHHHHHHHHHHTTCTTHHHHHHHHHHHTC-SSCSHHHH
T ss_pred             hCc-c-HHHHHHHHHHHHHCCCHHHHHHHHHHHhhcCcCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-hhhHHHHH
Confidence            752 3 77788888888888888888888888877655 56678888888888888888888888887764 34556777


Q ss_pred             HHHHHHHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcC-CCCcc-------HhHHHHHHHH
Q 039362          303 GLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQM-PLEPT-------ASMLGSLLTG  374 (440)
Q Consensus       303 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p~-------~~~~~~l~~~  374 (440)
                      .+...+...|++++|...++++.+.. +.+...+..+...+...|++++|...++++ ...|+       ...+..++..
T Consensus       343 ~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~  421 (514)
T 2gw1_A          343 QLACLAYRENKFDDCETLFSEAKRKF-PEAPEVPNFFAEILTDKNDFDKALKQYDLAIELENKLDGIYVGIAPLVGKATL  421 (514)
T ss_dssp             HHHHHTTTTTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSSSCSSCSHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHc-ccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccchHHHHHHHHHHHHHH
Confidence            78888888888888888888887753 235667778888888888888888888877 22222       2377788888


Q ss_pred             HHh---cCChhHHHHHHHHHHhcCCCCCchHHHHHHHHHhccChHHHHHHHHHHHhcCC
Q 039362          375 CMN---HGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEARTTREAMETRGV  430 (440)
Q Consensus       375 ~~~---~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  430 (440)
                      +..   .|++++|...++++.+..|.++.++..++.+|.+.|++++|.+.++++.+...
T Consensus       422 ~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~  480 (514)
T 2gw1_A          422 LTRNPTVENFIEATNLLEKASKLDPRSEQAKIGLAQMKLQQEDIDEAITLFEESADLAR  480 (514)
T ss_dssp             HHTSCCTTHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCS
T ss_pred             HhhhhhcCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhcc
Confidence            888   88888888888888888888888888888888888888888888888877643

>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=99.97  E-value=4.9e-29  Score=227.59  Aligned_cols=201  Identities=11%  Similarity=0.119  Sum_probs=175.0

Q ss_pred             HHHHHHHHHHHhcCCCCC-HHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCC---------H
Q 039362          177 KEALVIFEEMRDVGSKAN-EVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGA---------I  246 (440)
Q Consensus       177 ~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~---------~  246 (440)
                      ..+..+.+++.+.+..+. ...++.+|.+|++.|++++|.++|++|.+.|+.||..+|+.|+.+|++.+.         +
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            344556667776666554 346888999999999999999999999999999999999999999987664         7


Q ss_pred             HHHHHHHhhhhhc--CCchhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHHH
Q 039362          247 KEALIVFHGVEKH--QSDVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSL  324 (440)
Q Consensus       247 ~~A~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~  324 (440)
                      ++|.++|++|...  .||..+|+++|.+|++.|++++|.++|++|.+.|+.||..||+.+|.+|++.|++++|.++|++|
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            8999999999865  79999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcC---CCCccHhHHHHHHHHHHh
Q 039362          325 GKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQM---PLEPTASMLGSLLTGCMN  377 (440)
Q Consensus       325 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~---~~~p~~~~~~~l~~~~~~  377 (440)
                      .+.|+.||..+|+.|+.+|++.|++++|.+++++|   +..|+..||+.++..|..
T Consensus       167 ~~~G~~Pd~~ty~~Li~~~~~~g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~s  222 (501)
T 4g26_A          167 VESEVVPEEPELAALLKVSMDTKNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFKS  222 (501)
T ss_dssp             HHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSSBCHHHHHHHHHHHHS
T ss_pred             HhcCCCCCHHHHHHHHHHHhhCCCHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHhc
Confidence            99999999999999999999999999999999999   899999999999998875

>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=99.96  E-value=9.1e-27  Score=218.57  Aligned_cols=395  Identities=13%  Similarity=0.025  Sum_probs=297.0

Q ss_pred             hHHHHHHHHHHHccCChhhHHHHHHHHHHcCCCCCcchHHHHHHHhhchhcHHHHHHHHHHHHHcCCCCcHHHHHHHHHH
Q 039362           28 IFYWNTVIRGYSKSKNPNKSISLFVKMLRAGVSPDHLTYPFLAKASGRLAKRELAVAVHAQIAKTGYESDLFISNSLIHM  107 (440)
Q Consensus        28 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  107 (440)
                      ...|..+...+.+.|++++|+..|+++.+.. +.+..+|..+..++...|++++|.+.++++.+.++. +..++..+..+
T Consensus        25 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~la~~  102 (537)
T 3fp2_A           25 AVQLKNRGNHFFTAKNFNEAIKYYQYAIELD-PNEPVFYSNISACYISTGDLEKVIEFTTKALEIKPD-HSKALLRRASA  102 (537)
T ss_dssp             HHHHHHHHHHHHHTTCCC-CHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCc-hHHHHHHHHHH
Confidence            4577888888999999999999999988863 346777888889999999999999999999887644 77888889999


Q ss_pred             HHhcCCHHHHHHHhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHhhCCC------------------------------
Q 039362          108 YGSCGDIVYAREVFDGMPTKMSVSWNSMLDGYAKCGEMNMARQVFELMPE------------------------------  157 (440)
Q Consensus       108 ~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~------------------------------  157 (440)
                      +...|++++|...|+.+ ..++......+..+...+...+|...++.+..                              
T Consensus       103 ~~~~g~~~~A~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  181 (537)
T 3fp2_A          103 NESLGNFTDAMFDLSVL-SLNGDFDGASIEPMLERNLNKQAMKVLNENLSKDEGRGSQVLPSNTSLASFFGIFDSHLEVS  181 (537)
T ss_dssp             HHHHTCHHHHHHHHHHH-C-----------CHHHHHHHHHHHHHHHHHCC-------CCCCCHHHHHHHHHTSCHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHH-hcCCCCChHHHHHHHHHHHHHHHHHHHHHHHHhCccccccccchHhHHHHHHHhcChHHHHH
Confidence            99999999999988643 22222222233344444445556665555532                              


Q ss_pred             -------Cchh---hHHHHHHHHHh--------cCCHHHHHHHHHHHHhcCCCCCH-------HHHHHHHHHHHhcCChH
Q 039362          158 -------RNVV---SWSALIDGYVK--------CGDYKEALVIFEEMRDVGSKANE-------VTLVSVLCACAHLGALD  212 (440)
Q Consensus       158 -------~~~~---~~~~l~~~~~~--------~~~~~~a~~~~~~~~~~~~~~~~-------~~~~~l~~~~~~~~~~~  212 (440)
                             .+..   ....+...+..        .|++++|..+++++.+.. +.+.       .++..+...+...|+++
T Consensus       182 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~A~~~~~~~l~~~-p~~~~~~~~~~~~~~~~g~~~~~~~~~~  260 (537)
T 3fp2_A          182 SVNTSSNYDTAYALLSDALQRLYSATDEGYLVANDLLTKSTDMYHSLLSAN-TVDDPLRENAALALCYTGIFHFLKNNLL  260 (537)
T ss_dssp             TSCCCCSSCSSHHHHHHHHHHHHTCSHHHHHHHHHHHHHHHHHHHHHHC---CCCHHHHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHhhccccccHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHC-CCcchhhHHHHHHHHHHHHHHHhcccHH
Confidence                   1110   22222222221        247889999999888763 2222       24666667788889999


Q ss_pred             HHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCC-chhhHHHHHHHHHhcCChHHHHHHHHHHHH
Q 039362          213 QGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQS-DVLIWNAMIGGLAMHGFVKESLELFTEMQI  291 (440)
Q Consensus       213 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~  291 (440)
                      +|...++.+.+..  |+...+..+..++...|++++|...|+++.+..| +..++..+...+...|++++|...++++.+
T Consensus       261 ~A~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~  338 (537)
T 3fp2_A          261 DAQVLLQESINLH--PTPNSYIFLALTLADKENSQEFFKFFQKAVDLNPEYPPTYYHRGQMYFILQDYKNAKEDFQKAQS  338 (537)
T ss_dssp             HHHHHHHHHHHHC--CCHHHHHHHHHHTCCSSCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcC--CCchHHHHHHHHHHHhcCHHHHHHHHHHHhccCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Confidence            9999999998875  4477888899999999999999999999887766 477888899999999999999999999887


Q ss_pred             cCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcC-CCCc-------
Q 039362          292 VGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQM-PLEP-------  363 (440)
Q Consensus       292 ~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-------  363 (440)
                      .. +.+...+..+...+...|++++|...++++.+.. +.+...+..+...+...|++++|.+.++++ ...|       
T Consensus       339 ~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~  416 (537)
T 3fp2_A          339 LN-PENVYPYIQLACLLYKQGKFTESEAFFNETKLKF-PTLPEVPTFFAEILTDRGDFDTAIKQYDIAKRLEEVQEKIHV  416 (537)
T ss_dssp             HC-TTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCSSCSS
T ss_pred             hC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCcchhhHH
Confidence            64 4456678888889999999999999999998864 335668888899999999999999999887 2112       


Q ss_pred             cHhHHHHHHHHHHhc----------CChhHHHHHHHHHHhcCCCCCchHHHHHHHHHhccChHHHHHHHHHHHhcCC
Q 039362          364 TASMLGSLLTGCMNH----------GKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEARTTREAMETRGV  430 (440)
Q Consensus       364 ~~~~~~~l~~~~~~~----------g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  430 (440)
                      ....+......+...          |++++|...++++.+..|.++.++..++.+|...|++++|.+.++++.+...
T Consensus       417 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~  493 (537)
T 3fp2_A          417 GIGPLIGKATILARQSSQDPTQLDEEKFNAAIKLLTKACELDPRSEQAKIGLAQLKLQMEKIDEAIELFEDSAILAR  493 (537)
T ss_dssp             TTHHHHHHHHHHHHHHTC----CCHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-
T ss_pred             HHHHHHHHHHHHHHHhhccchhhhHhHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCC
Confidence            223344555667777          9999999999999999999999999999999999999999999999887653

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.96  E-value=6.7e-27  Score=218.22  Aligned_cols=393  Identities=10%  Similarity=-0.058  Sum_probs=312.9

Q ss_pred             ccccccCChhhHHHHhhhcC--CCChHHHHHHHHHHHccCChhhHHHHHHHHHHcCCCCCcchHHHHHHHhhchhcHHHH
Q 039362            5 SALSYLGNIDYSCKVLSHLS--NPRIFYWNTVIRGYSKSKNPNKSISLFVKMLRAGVSPDHLTYPFLAKASGRLAKRELA   82 (440)
Q Consensus         5 y~~~~~g~~~~A~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a   82 (440)
                      |...  |++++|...|+++.  .|+..+|..+..++.+.|++++|+..++++.+.+ +.+..++..+..++...|++++|
T Consensus        16 ~~~~--g~~~~A~~~~~~al~~~p~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A   92 (514)
T 2gw1_A           16 FFRN--KKYDDAIKYYNWALELKEDPVFYSNLSACYVSVGDLKKVVEMSTKALELK-PDYSKVLLRRASANEGLGKFADA   92 (514)
T ss_dssp             HHHT--SCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHh--ccHHHHHHHHHHHHhcCccHHHHHhHHHHHHHHhhHHHHHHHHHHHhccC-hHHHHHHHHHHHHHHHHhhHHHH
Confidence            4445  99999999999875  5788899999999999999999999999988864 34556788889999999999999


Q ss_pred             HHHHHHHHHcCCCCcHHHHHHHHHHHHhcCCHHHHHHHh--------------------------------------hCC
Q 039362           83 VAVHAQIAKTGYESDLFISNSLIHMYGSCGDIVYAREVF--------------------------------------DGM  124 (440)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~--------------------------------------~~~  124 (440)
                      ...|+.+.+.++. +......++..+........+.+.+                                      ...
T Consensus        93 ~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  171 (514)
T 2gw1_A           93 MFDLSVLSLNGDF-NDASIEPMLERNLNKQAMSKLKEKFGDIDTATATPTELSTQPAKERKDKQENLPSVTSMASFFGIF  171 (514)
T ss_dssp             HHHHHHHHHSSSC-CGGGTHHHHHHHHHHHHHHHHTTC---------------------------CCCCHHHHHHHHTTS
T ss_pred             HHHHHHHHhcCCC-ccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCChhhHHHhhccCCchhHHHHHHHhhc
Confidence            9999999887643 3333333444333322222222221                                      111


Q ss_pred             C---------CC-chhhHHHHHHHHHh---cCChHHHHHHHhhCCC----------------C-chhhHHHHHHHHHhcC
Q 039362          125 P---------TK-MSVSWNSMLDGYAK---CGEMNMARQVFELMPE----------------R-NVVSWSALIDGYVKCG  174 (440)
Q Consensus       125 ~---------~~-~~~~~~~l~~~~~~---~~~~~~a~~~~~~~~~----------------~-~~~~~~~l~~~~~~~~  174 (440)
                      .         .+ +...+......+..   .|++++|...|+++.+                | +..++..+...+...|
T Consensus       172 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  251 (514)
T 2gw1_A          172 KPELTFANYDESNEADKELMNGLSNLYKRSPESYDKADESFTKAARLFEEQLDKNNEDEKLKEKLAISLEHTGIFKFLKN  251 (514)
T ss_dssp             CCCCCCSSCCSSCHHHHHHHHHHHHHSSCCTTHHHHHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHHHHHHHHSS
T ss_pred             CHHHHHHHhcCCcHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHhhhhhccCccccccChHHHHHHHHHHHHHHHCC
Confidence            0         01 13344444444444   8999999999988754                1 3557888899999999


Q ss_pred             CHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHh
Q 039362          175 DYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFH  254 (440)
Q Consensus       175 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  254 (440)
                      ++++|...++++....  |+...+..+..++...|++++|...++.+.+.. +.+..++..+..+|...|++++|...|+
T Consensus       252 ~~~~A~~~~~~~l~~~--~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~  328 (514)
T 2gw1_A          252 DPLGAHEDIKKAIELF--PRVNSYIYMALIMADRNDSTEYYNYFDKALKLD-SNNSSVYYHRGQMNFILQNYDQAGKDFD  328 (514)
T ss_dssp             CHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHTSSCCTTGGGHHHHHHTTC-TTCTHHHHHHHHHHHHTTCTTHHHHHHH
T ss_pred             CHHHHHHHHHHHHhhC--ccHHHHHHHHHHHHHCCCHHHHHHHHHHHhhcC-cCCHHHHHHHHHHHHHhCCHHHHHHHHH
Confidence            9999999999998875  337888889999999999999999999998876 6678889999999999999999999999


Q ss_pred             hhhhcCC-chhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHhhcCC-CCC
Q 039362          255 GVEKHQS-DVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKRGM-VPK  332 (440)
Q Consensus       255 ~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~  332 (440)
                      ++.+..| +...+..+...+...|++++|...++++.+.. +.+...+..+...+...|++++|...++++.+... .++
T Consensus       329 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~  407 (514)
T 2gw1_A          329 KAKELDPENIFPYIQLACLAYRENKFDDCETLFSEAKRKF-PEAPEVPNFFAEILTDKNDFDKALKQYDLAIELENKLDG  407 (514)
T ss_dssp             HHHHTCSSCSHHHHHHHHHTTTTTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSSS
T ss_pred             HHHHhChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHc-ccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccch
Confidence            9987766 57788899999999999999999999998764 44567888899999999999999999999987621 122


Q ss_pred             ----cchHHHHHHHHHh---cCCHHHHHHHHhcC-CCCc-cHhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCCchHH
Q 039362          333 ----SEHYACMVDALSR---AGQVTEAYEFICQM-PLEP-TASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYV  403 (440)
Q Consensus       333 ----~~~~~~l~~~~~~---~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~  403 (440)
                          ...+..+...+..   .|++++|.+.++++ ...| +..++..+...+...|++++|...++++.+.+|.++..+.
T Consensus       408 ~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~  487 (514)
T 2gw1_A          408 IYVGIAPLVGKATLLTRNPTVENFIEATNLLEKASKLDPRSEQAKIGLAQMKLQQEDIDEAITLFEESADLARTMEEKLQ  487 (514)
T ss_dssp             CSSCSHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhhhhhcCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhccccHHHHH
Confidence                3378899999999   99999999999998 3344 5678889999999999999999999999999999887766


Q ss_pred             HH
Q 039362          404 GL  405 (440)
Q Consensus       404 ~l  405 (440)
                      .+
T Consensus       488 ~~  489 (514)
T 2gw1_A          488 AI  489 (514)
T ss_dssp             HH
T ss_pred             HH
Confidence            55

>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=99.96  E-value=2.2e-25  Score=204.43  Aligned_cols=378  Identities=10%  Similarity=0.006  Sum_probs=261.2

Q ss_pred             hhHHHHhhhcC---CCChHHHHHHHHHHHccCChhhHHHHHHHHHHcCCCCCcchHHHHHHHhhchhcHHHHHHHHHHHH
Q 039362           14 DYSCKVLSHLS---NPRIFYWNTVIRGYSKSKNPNKSISLFVKMLRAGVSPDHLTYPFLAKASGRLAKRELAVAVHAQIA   90 (440)
Q Consensus        14 ~~A~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~   90 (440)
                      ..+...+..+.   +.+...|..++..+.+.|++++|+.+|+++.+.. +.+..++..+..++...|++++|...++.+.
T Consensus         9 ~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al   87 (450)
T 2y4t_A            9 SGVDLGTENLYFQSMADVEKHLELGKKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVI   87 (450)
T ss_dssp             --------------CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             ccccccccccccccHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            33444444433   4566789999999999999999999999998763 4567788999999999999999999999999


Q ss_pred             HcCCCCcHHHHHHHHHHHHhcCCHHHHHHHhhCCCCCc---h---hhHHHHHHHHHhcCChHHHHHHHhhCCCCchhhHH
Q 039362           91 KTGYESDLFISNSLIHMYGSCGDIVYAREVFDGMPTKM---S---VSWNSMLDGYAKCGEMNMARQVFELMPERNVVSWS  164 (440)
Q Consensus        91 ~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~---~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  164 (440)
                      +.++. +..++..+..+|.+.|++++|...|+++.+.+   .   ..+..+...+.                   ...+.
T Consensus        88 ~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~-------------------~~~~~  147 (450)
T 2y4t_A           88 QLKMD-FTAARLQRGHLLLKQGKLDEAEDDFKKVLKSNPSENEEKEAQSQLIKSDE-------------------MQRLR  147 (450)
T ss_dssp             HHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHH-------------------HHHHH
T ss_pred             hcCCC-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHH-------------------HHHHH
Confidence            88644 67888899999999999999999998876532   2   44444443321                   11233


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcC
Q 039362          165 ALIDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCG  244 (440)
Q Consensus       165 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  244 (440)
                      .+...+...|++++|...|+++.... +.+...+..+..++...|++++|...++++.+.. +.+..++..++.+|...|
T Consensus       148 ~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g  225 (450)
T 2y4t_A          148 SQALNAFGSGDYTAAIAFLDKILEVC-VWDAELRELRAECFIKEGEPRKAISDLKAASKLK-NDNTEAFYKISTLYYQLG  225 (450)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHH-CSCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcC
Confidence            34556677788888888888777653 4466677777777788888888888888777664 556777777888888888


Q ss_pred             CHHHHHHHHhhhhhcCCch-hhHHHH------------HHHHHhcCChHHHHHHHHHHHHcCCCcc-----HhhHHHHHH
Q 039362          245 AIKEALIVFHGVEKHQSDV-LIWNAM------------IGGLAMHGFVKESLELFTEMQIVGITPD-----EITFLGLLS  306 (440)
Q Consensus       245 ~~~~A~~~~~~~~~~~~~~-~~~~~l------------~~~~~~~~~~~~a~~~~~~m~~~~~~p~-----~~~~~~l~~  306 (440)
                      ++++|+..|+++.+..|+. ..+..+            +..+...|++++|...|+++.+..  |+     ...+..+..
T Consensus       226 ~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~--p~~~~~~~~~~~~l~~  303 (450)
T 2y4t_A          226 DHELSLSEVRECLKLDQDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTE--PSIAEYTVRSKERICH  303 (450)
T ss_dssp             CHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--CSSHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CcchHHHHHHHHHHHH
Confidence            8888888888777666643 333333            667777888888888888877643  33     235667777


Q ss_pred             HHHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcC-CCCccH-hHHHHHHH-----------
Q 039362          307 ACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQM-PLEPTA-SMLGSLLT-----------  373 (440)
Q Consensus       307 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p~~-~~~~~l~~-----------  373 (440)
                      .+.+.|++++|...++++.+.. +.+...+..+..+|...|++++|...++++ .+.|+. ..+..+..           
T Consensus       304 ~~~~~g~~~~A~~~~~~a~~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~~  382 (450)
T 2y4t_A          304 CFSKDEKPVEAIRVCSEVLQME-PDNVNALKDRAEAYLIEEMYDEAIQDYETAQEHNENDQQIREGLEKAQRLLKQSQKR  382 (450)
T ss_dssp             HHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHHHHHHHSC
T ss_pred             HHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCcchHHHHHHHHHHHHHhhcccch
Confidence            7778888888888888877653 225667777788888888888888888877 555643 44444442           


Q ss_pred             -HHHhcC-----ChhHHHHHHHH-HHhcCCCCCc----------hHHHHHHHHHhccChHH
Q 039362          374 -GCMNHG-----KLDLAEIVGKK-LVELQPDHDG----------RYVGLSNVYAIFKRWDE  417 (440)
Q Consensus       374 -~~~~~g-----~~~~a~~~~~~-~~~~~~~~~~----------~~~~l~~~~~~~g~~~~  417 (440)
                       .|...|     +.+++.+.+++ +.+..|++..          .+..+..+|...|+.++
T Consensus       383 ~~y~~lg~~~~~~~~~~~~~y~~~~l~~~pd~~~~~~~~~~a~~~~~~i~~ay~~L~d~~~  443 (450)
T 2y4t_A          383 DYYKILGVKRNAKKQEIIKAYRKLALQWHPDNFQNEEEKKKAEKKFIDIAAAKEVLSDPEM  443 (450)
T ss_dssp             CSGGGSCSSTTCCTTHHHHHHHHHHHHSCGGGCCSHHHHHHHHHHHHHHHHHHHHSSGGGG
T ss_pred             hHHHHhCCCccCCHHHHHHHHHHHHHHhCCCCCCCchHHHHHHHHHHHHHHHHHHhCCHHH
Confidence             233334     56777888886 6666665432          34455555555555444

>2y4t_A DNAJ homolog subfamily C member 3; chaperone, endoplasmic reticulum, protein folding, tetratricopeptiderepeat, J domain, unfolded protein respons; 3.00A {Homo sapiens} PDB: 2y4u_A

Probab=99.95  E-value=9.7e-26  Score=206.76  Aligned_cols=333  Identities=12%  Similarity=0.034  Sum_probs=243.8

Q ss_pred             cchHHHHHHHhhchhcHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhcCCHHHHHHHhhCCCCCchhhHHHHHHHHHhc
Q 039362           63 HLTYPFLAKASGRLAKRELAVAVHAQIAKTGYESDLFISNSLIHMYGSCGDIVYAREVFDGMPTKMSVSWNSMLDGYAKC  142 (440)
Q Consensus        63 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~  142 (440)
                      ...+..+...+.+.|++++|..+|+.+.+..+ .+..++..+..++...|++++|...|+++.+.+              
T Consensus        26 ~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p-~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~--------------   90 (450)
T 2y4t_A           26 VEKHLELGKKLLAAGQLADALSQFHAAVDGDP-DNYIAYYRRATVFLAMGKSKAALPDLTKVIQLK--------------   90 (450)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--------------
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-ccHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--------------
Confidence            34455555555555555555555555554432 244445555555555555555555444432210              


Q ss_pred             CChHHHHHHHhhCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCH---HHHHHH------------HHHHHh
Q 039362          143 GEMNMARQVFELMPERNVVSWSALIDGYVKCGDYKEALVIFEEMRDVGSKANE---VTLVSV------------LCACAH  207 (440)
Q Consensus       143 ~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~l------------~~~~~~  207 (440)
                                    ..+..++..+..+|.+.|++++|...|+++.... +.+.   ..+..+            ...+..
T Consensus        91 --------------p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  155 (450)
T 2y4t_A           91 --------------MDFTAARLQRGHLLLKQGKLDEAEDDFKKVLKSN-PSENEEKEAQSQLIKSDEMQRLRSQALNAFG  155 (450)
T ss_dssp             --------------TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSC-CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             --------------CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCChhhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence                          1234566666677777777777777777766542 2222   333333            445888


Q ss_pred             cCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCC-chhhHHHHHHHHHhcCChHHHHHHH
Q 039362          208 LGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQS-DVLIWNAMIGGLAMHGFVKESLELF  286 (440)
Q Consensus       208 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~  286 (440)
                      .|++++|...++.+.+.. +.+..++..++.+|...|++++|...|+++.+..| +..++..++..+...|++++|+..|
T Consensus       156 ~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  234 (450)
T 2y4t_A          156 SGDYTAAIAFLDKILEVC-VWDAELRELRAECFIKEGEPRKAISDLKAASKLKNDNTEAFYKISTLYYQLGDHELSLSEV  234 (450)
T ss_dssp             HTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHCSCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            999999999999999876 67888999999999999999999999999987654 6789999999999999999999999


Q ss_pred             HHHHHcCCCccHhhHHHH------------HHHHHcCCChHHHHHHHHHHhhcCCCCC-----cchHHHHHHHHHhcCCH
Q 039362          287 TEMQIVGITPDEITFLGL------------LSACAHGGLVMEAWYFFKSLGKRGMVPK-----SEHYACMVDALSRAGQV  349 (440)
Q Consensus       287 ~~m~~~~~~p~~~~~~~l------------~~~~~~~~~~~~a~~~~~~~~~~~~~~~-----~~~~~~l~~~~~~~~~~  349 (440)
                      +++.... +.+...+..+            ...+.+.|++++|...|+++.+..  |+     ...+..++..+.+.|++
T Consensus       235 ~~~~~~~-p~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~--p~~~~~~~~~~~~l~~~~~~~g~~  311 (450)
T 2y4t_A          235 RECLKLD-QDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTE--PSIAEYTVRSKERICHCFSKDEKP  311 (450)
T ss_dssp             HHHHHHC-TTCHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--CSSHHHHHHHHHHHHHHHHTTTCH
T ss_pred             HHHHHhC-CChHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CcchHHHHHHHHHHHHHHHHCCCH
Confidence            9998763 3333444444            788899999999999999999853  44     34678889999999999


Q ss_pred             HHHHHHHhcC-CCCc-cHhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCCchHHHHHHH------------HHhcc--
Q 039362          350 TEAYEFICQM-PLEP-TASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNV------------YAIFK--  413 (440)
Q Consensus       350 ~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~------------~~~~g--  413 (440)
                      ++|...++++ ...| +...|..++.+|...|++++|...++++++..|.++.++..++.+            |...|  
T Consensus       312 ~~A~~~~~~a~~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~~~~y~~lg~~  391 (450)
T 2y4t_A          312 VEAIRVCSEVLQMEPDNVNALKDRAEAYLIEEMYDEAIQDYETAQEHNENDQQIREGLEKAQRLLKQSQKRDYYKILGVK  391 (450)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHHHHHHHSCCSGGGSCSS
T ss_pred             HHHHHHHHHHHHhCcccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCcchHHHHHHHHHHHHHhhcccchhHHHHhCCC
Confidence            9999999997 4445 578899999999999999999999999999999999888888844            44445  


Q ss_pred             ---ChHHHHHHHHH-HHhcC
Q 039362          414 ---RWDEARTTREA-METRG  429 (440)
Q Consensus       414 ---~~~~A~~~~~~-~~~~~  429 (440)
                         +.+++.+.+++ ..+..
T Consensus       392 ~~~~~~~~~~~y~~~~l~~~  411 (450)
T 2y4t_A          392 RNAKKQEIIKAYRKLALQWH  411 (450)
T ss_dssp             TTCCTTHHHHHHHHHHHHSC
T ss_pred             ccCCHHHHHHHHHHHHHHhC
Confidence               56677777776 44433

>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=99.95  E-value=2.7e-24  Score=201.73  Aligned_cols=387  Identities=12%  Similarity=0.014  Sum_probs=297.4

Q ss_pred             ccccccCChhhHHHHhhhcC---CCChHHHHHHHHHHHccCChhhHHHHHHHHHHcCCCCCcchHHHHHHHhhchhcHHH
Q 039362            5 SALSYLGNIDYSCKVLSHLS---NPRIFYWNTVIRGYSKSKNPNKSISLFVKMLRAGVSPDHLTYPFLAKASGRLAKREL   81 (440)
Q Consensus         5 y~~~~~g~~~~A~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~   81 (440)
                      |...  |++++|.+.|+++.   +.++.+|..+...+.+.|++++|+..|+++.+.+ +.+..++..+..++...|++++
T Consensus        35 ~~~~--g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~  111 (537)
T 3fp2_A           35 FFTA--KNFNEAIKYYQYAIELDPNEPVFYSNISACYISTGDLEKVIEFTTKALEIK-PDHSKALLRRASANESLGNFTD  111 (537)
T ss_dssp             HHHT--TCCC-CHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHH
T ss_pred             HHHh--ccHHHHHHHHHHHHhhCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CchHHHHHHHHHHHHHcCCHHH
Confidence            4445  99999999999864   5678899999999999999999999999998864 3456788999999999999999


Q ss_pred             HHHHHHHHHHcCCCCcHHHHHHHHHHHHhcCCHHHHHHHhhCC-------------------------------------
Q 039362           82 AVAVHAQIAKTGYESDLFISNSLIHMYGSCGDIVYAREVFDGM-------------------------------------  124 (440)
Q Consensus        82 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~-------------------------------------  124 (440)
                      |...|+ .....+.+..    ..+..+...+....|...++.+                                     
T Consensus       112 A~~~~~-~~~~~~~~~~----~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  186 (537)
T 3fp2_A          112 AMFDLS-VLSLNGDFDG----ASIEPMLERNLNKQAMKVLNENLSKDEGRGSQVLPSNTSLASFFGIFDSHLEVSSVNTS  186 (537)
T ss_dssp             HHHHHH-HHC---------------CHHHHHHHHHHHHHHHHHCC-------CCCCCHHHHHHHHHTSCHHHHHHTSCCC
T ss_pred             HHHHHH-HHhcCCCCCh----HHHHHHHHHHHHHHHHHHHHHHHHhCccccccccchHhHHHHHHHhcChHHHHHHHhhc
Confidence            999996 4333222111    1122233333334444444433                                     


Q ss_pred             CCCchh---hHHHHHHHHHh--------cCChHHHHHHHhhCCC--Cc--------hhhHHHHHHHHHhcCCHHHHHHHH
Q 039362          125 PTKMSV---SWNSMLDGYAK--------CGEMNMARQVFELMPE--RN--------VVSWSALIDGYVKCGDYKEALVIF  183 (440)
Q Consensus       125 ~~~~~~---~~~~l~~~~~~--------~~~~~~a~~~~~~~~~--~~--------~~~~~~l~~~~~~~~~~~~a~~~~  183 (440)
                      ...+..   ....+...+..        .|++++|..+|+++.+  |+        ..++..+...+...|++++|...+
T Consensus       187 ~~~~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~A~~~~~~~l~~~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~  266 (537)
T 3fp2_A          187 SNYDTAYALLSDALQRLYSATDEGYLVANDLLTKSTDMYHSLLSANTVDDPLRENAALALCYTGIFHFLKNNLLDAQVLL  266 (537)
T ss_dssp             CSSCSSHHHHHHHHHHHHTCSHHHHHHHHHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             cccccHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHCCCcchhhHHHHHHHHHHHHHHHhcccHHHHHHHH
Confidence            322211   22222222222        2478999999998875  32        235777778899999999999999


Q ss_pred             HHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCC-c
Q 039362          184 EEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQS-D  262 (440)
Q Consensus       184 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~  262 (440)
                      +++...  .|+...+..+...+...|++++|...++.+.+.. +.+..++..+..++...|++++|...|+++.+..| +
T Consensus       267 ~~~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~  343 (537)
T 3fp2_A          267 QESINL--HPTPNSYIFLALTLADKENSQEFFKFFQKAVDLN-PEYPPTYYHRGQMYFILQDYKNAKEDFQKAQSLNPEN  343 (537)
T ss_dssp             HHHHHH--CCCHHHHHHHHHHTCCSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTC
T ss_pred             HHHHhc--CCCchHHHHHHHHHHHhcCHHHHHHHHHHHhccC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCC
Confidence            999887  4557888889999999999999999999999886 67788999999999999999999999999988766 4


Q ss_pred             hhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHhhcCCC-C----CcchHH
Q 039362          263 VLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKRGMV-P----KSEHYA  337 (440)
Q Consensus       263 ~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~----~~~~~~  337 (440)
                      ...+..+...+...|++++|...++++.+.. +.+...+..+...+...|++++|...|+++.+.... +    ....+.
T Consensus       344 ~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~  422 (537)
T 3fp2_A          344 VYPYIQLACLLYKQGKFTESEAFFNETKLKF-PTLPEVPTFFAEILTDRGDFDTAIKQYDIAKRLEEVQEKIHVGIGPLI  422 (537)
T ss_dssp             SHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCSSCSSTTHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCcchhhHHHHHHHH
Confidence            7789999999999999999999999998874 455678889999999999999999999998876211 1    111244


Q ss_pred             HHHHHHHhc----------CCHHHHHHHHhcC-CCCc-cHhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCCchHH
Q 039362          338 CMVDALSRA----------GQVTEAYEFICQM-PLEP-TASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYV  403 (440)
Q Consensus       338 ~l~~~~~~~----------~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~  403 (440)
                      .+...+...          |++++|...++++ ...| +...+..+...+...|++++|...++++.+..|.++....
T Consensus       423 ~~a~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~  500 (537)
T 3fp2_A          423 GKATILARQSSQDPTQLDEEKFNAAIKLLTKACELDPRSEQAKIGLAQLKLQMEKIDEAIELFEDSAILARTMDEKLQ  500 (537)
T ss_dssp             HHHHHHHHHHTC----CCHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CHHHHH
T ss_pred             HHHHHHHHHhhccchhhhHhHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCcHHHHH
Confidence            456677777          9999999999998 4444 5678899999999999999999999999999998876543

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.93  E-value=1.7e-22  Score=179.27  Aligned_cols=309  Identities=13%  Similarity=0.056  Sum_probs=184.2

Q ss_pred             cHHHHHHHHHHHHhcCCHHHHHHHhhCCCC---CchhhHHHHHHHHHhcCChHHHHHHHhhCCC--C-chhhHHHHHHHH
Q 039362           97 DLFISNSLIHMYGSCGDIVYAREVFDGMPT---KMSVSWNSMLDGYAKCGEMNMARQVFELMPE--R-NVVSWSALIDGY  170 (440)
Q Consensus        97 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~-~~~~~~~l~~~~  170 (440)
                      ++..+..+...+...|++++|...|+++.+   .+...+..+..++...|++++|...|+++.+  | +...+..+...+
T Consensus         2 ~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~   81 (359)
T 3ieg_A            2 DVEKHLELGKKLLAAGQLADALSQFHAAVDGDPDNYIAYYRRATVFLAMGKSKAALPDLTKVIALKMDFTAARLQRGHLL   81 (359)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCcchHHHHHHHHH
Confidence            345666677777777777777777776643   2455666677777777777777777776653  2 455666777777


Q ss_pred             HhcCCHHHHHHHHHHHHhcCCC---CCHHHHHHH------------HHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHH
Q 039362          171 VKCGDYKEALVIFEEMRDVGSK---ANEVTLVSV------------LCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTS  235 (440)
Q Consensus       171 ~~~~~~~~a~~~~~~~~~~~~~---~~~~~~~~l------------~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  235 (440)
                      ...|++++|...++++.+.. +   .+...+..+            ...+...|++++|...++.+.+.. +.+...+..
T Consensus        82 ~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~  159 (359)
T 3ieg_A           82 LKQGKLDEAEDDFKKVLKSN-PSEQEEKEAESQLVKADEMQRLRSQALDAFDGADYTAAITFLDKILEVC-VWDAELREL  159 (359)
T ss_dssp             HHHTCHHHHHHHHHHHHTSC-CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHH
T ss_pred             HHcCChHHHHHHHHHHHhcC-CcccChHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCchHHHHH
Confidence            77777777777777776552 1   123333333            355566666677776666666654 455566666


Q ss_pred             HHHHHHhcCCHHHHHHHHhhhhhcCC-chhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHH-----------
Q 039362          236 LIDMYAKCGAIKEALIVFHGVEKHQS-DVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLG-----------  303 (440)
Q Consensus       236 l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~-----------  303 (440)
                      +..++...|++++|...++++.+..| +...+..+...+...|++++|...+++..+.. +.+...+..           
T Consensus       160 ~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~~~~~~~~~~~  238 (359)
T 3ieg_A          160 RAECFIKEGEPRKAISDLKAASKLKSDNTEAFYKISTLYYQLGDHELSLSEVRECLKLD-QDHKRCFAHYKQVKKLNKLI  238 (359)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTCSCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-ccchHHHHHHHHHHHHHHHH
Confidence            66666666667666666666665544 45566666666666666666666666666542 222222221           


Q ss_pred             -HHHHHHcCCChHHHHHHHHHHhhcCCCCCc-----chHHHHHHHHHhcCCHHHHHHHHhcC-CCCc-cHhHHHHHHHHH
Q 039362          304 -LLSACAHGGLVMEAWYFFKSLGKRGMVPKS-----EHYACMVDALSRAGQVTEAYEFICQM-PLEP-TASMLGSLLTGC  375 (440)
Q Consensus       304 -l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-----~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~  375 (440)
                       +...+.+.|++++|...++++.+..  |+.     ..+..+...+...|++++|.+.+++. ...| +..++..+...+
T Consensus       239 ~~a~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~  316 (359)
T 3ieg_A          239 ESAEELIRDGRYTDATSKYESVMKTE--PSVAEYTVRSKERICHCFSKDEKPVEAIRICSEVLQMEPDNVNALKDRAEAY  316 (359)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC--CSSHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhcC--CCchHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCcccHHHHHHHHHHH
Confidence             1334555666666666666665542  221     11333455556666666666666655 2233 445555566666


Q ss_pred             HhcCChhHHHHHHHHHHhcCCCCCchHHHHHHHHH
Q 039362          376 MNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYA  410 (440)
Q Consensus       376 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~  410 (440)
                      ...|++++|...++++.+.+|.++..+..+..+..
T Consensus       317 ~~~g~~~~A~~~~~~a~~~~p~~~~~~~~l~~~~~  351 (359)
T 3ieg_A          317 LIEEMYDEAIQDYEAAQEHNENDQQIREGLEKAQR  351 (359)
T ss_dssp             HHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHhcCCCChHHHHHHHHHHH
Confidence            66666666666666666666665555555544443

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.92  E-value=2.1e-22  Score=178.65  Aligned_cols=319  Identities=10%  Similarity=-0.016  Sum_probs=239.0

Q ss_pred             ChHHHHHHHHHHHccCChhhHHHHHHHHHHcCCCCCcchHHHHHHHhhchhcHHHHHHHHHHHHHcCCCCcHHHHHHHHH
Q 039362           27 RIFYWNTVIRGYSKSKNPNKSISLFVKMLRAGVSPDHLTYPFLAKASGRLAKRELAVAVHAQIAKTGYESDLFISNSLIH  106 (440)
Q Consensus        27 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  106 (440)
                      |+..+..+...+...|++++|+..|+++.+.. +.+..++..+...+...|++++|...++.+.+..+. +...+..+..
T Consensus         2 ~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~   79 (359)
T 3ieg_A            2 DVEKHLELGKKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIALKMD-FTAARLQRGH   79 (359)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC-cchHHHHHHH
Confidence            45566777777777778888887777777652 334566777777777777777777777777766432 4455666666


Q ss_pred             HHHhcCCHHHHHHHhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHhhCCCCchhhHHHH------------HHHHHhcC
Q 039362          107 MYGSCGDIVYAREVFDGMPTKMSVSWNSMLDGYAKCGEMNMARQVFELMPERNVVSWSAL------------IDGYVKCG  174 (440)
Q Consensus       107 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l------------~~~~~~~~  174 (440)
                      ++...|++++|...|+++.+.++..                         ..+...+..+            ...+...|
T Consensus        80 ~~~~~~~~~~A~~~~~~~~~~~~~~-------------------------~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  134 (359)
T 3ieg_A           80 LLLKQGKLDEAEDDFKKVLKSNPSE-------------------------QEEKEAESQLVKADEMQRLRSQALDAFDGA  134 (359)
T ss_dssp             HHHHHTCHHHHHHHHHHHHTSCCCH-------------------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHcCChHHHHHHHHHHHhcCCcc-------------------------cChHHHHHHHHHHHHHHHHHHHHHHHHHcc
Confidence            6666666666655555443211100                         0133444444            57889999


Q ss_pred             CHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHh
Q 039362          175 DYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFH  254 (440)
Q Consensus       175 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  254 (440)
                      ++++|.+.++++.+.. +.+...+..+..++...|++++|...++.+.+.. +.+...+..+..+|...|++++|...|+
T Consensus       135 ~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~  212 (359)
T 3ieg_A          135 DYTAAITFLDKILEVC-VWDAELRELRAECFIKEGEPRKAISDLKAASKLK-SDNTEAFYKISTLYYQLGDHELSLSEVR  212 (359)
T ss_dssp             CHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-SCCHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhC-CCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            9999999999998875 5577888899999999999999999999999876 7788899999999999999999999999


Q ss_pred             hhhhcCCch-hhHH------------HHHHHHHhcCChHHHHHHHHHHHHcCCCccH----hhHHHHHHHHHcCCChHHH
Q 039362          255 GVEKHQSDV-LIWN------------AMIGGLAMHGFVKESLELFTEMQIVGITPDE----ITFLGLLSACAHGGLVMEA  317 (440)
Q Consensus       255 ~~~~~~~~~-~~~~------------~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~----~~~~~l~~~~~~~~~~~~a  317 (440)
                      ++.+..|+. ..+.            .+...+...|++++|...++++.+.. +.+.    ..+..+...+...|++++|
T Consensus       213 ~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~la~~~~~~~~~~~A  291 (359)
T 3ieg_A          213 ECLKLDQDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTE-PSVAEYTVRSKERICHCFSKDEKPVEA  291 (359)
T ss_dssp             HHHHHCTTCHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CSSHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHhhCccchHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHHHHHccCHHHH
Confidence            998876653 3332            23667889999999999999998864 2222    2345577889999999999


Q ss_pred             HHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcC-CCCccH-hHHHHHHHHHH
Q 039362          318 WYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQM-PLEPTA-SMLGSLLTGCM  376 (440)
Q Consensus       318 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p~~-~~~~~l~~~~~  376 (440)
                      ...++++.+.. +.+...+..+...+...|++++|.+.++++ ...|+. ..+..+..+..
T Consensus       292 ~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~p~~~~~~~~l~~~~~  351 (359)
T 3ieg_A          292 IRICSEVLQME-PDNVNALKDRAEAYLIEEMYDEAIQDYEAAQEHNENDQQIREGLEKAQR  351 (359)
T ss_dssp             HHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCChHHHHHHHHHHH
Confidence            99999999864 236778899999999999999999999998 677764 45555555443

>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=99.90  E-value=3.1e-21  Score=169.07  Aligned_cols=285  Identities=13%  Similarity=0.031  Sum_probs=207.4

Q ss_pred             chhhHHHHHHHHHhcCChHHHHHHHhhCCC---CchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHH
Q 039362          128 MSVSWNSMLDGYAKCGEMNMARQVFELMPE---RNVVSWSALIDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCA  204 (440)
Q Consensus       128 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  204 (440)
                      +...+..+...+...|++++|.++|+++.+   .+...+..++.++...|++++|...++++.+.. +.+...+..+...
T Consensus        21 ~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~   99 (330)
T 3hym_B           21 NLDVVVSLAERHYYNCDFKMCYKLTSVVMEKDPFHASCLPVHIGTLVELNKANELFYLSHKLVDLY-PSNPVSWFAVGCY   99 (330)
T ss_dssp             CCTTHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSTHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHHHH
Confidence            334455555556666666666666666543   234556666777777888888888888877653 3455667777777


Q ss_pred             HHhcC-ChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCCc-hhhHHHHHHHHHhcCChHHH
Q 039362          205 CAHLG-ALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQSD-VLIWNAMIGGLAMHGFVKES  282 (440)
Q Consensus       205 ~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a  282 (440)
                      +...| ++++|...++++.+.. +.+...+..+..++...|++++|...|+++.+..|+ ...+..+...+...|++++|
T Consensus       100 ~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A  178 (330)
T 3hym_B          100 YLMVGHKNEHARRYLSKATTLE-KTYGPAWIAYGHSFAVESEHDQAMAAYFTAAQLMKGCHLPMLYIGLEYGLTNNSKLA  178 (330)
T ss_dssp             HHHSCSCHHHHHHHHHHHHTTC-TTCTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCSHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHhhhhHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHhhHHHH
Confidence            77777 7888888888877765 556677778888888888888888888887766553 56666777788888888888


Q ss_pred             HHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHhhcC--------CCCCcchHHHHHHHHHhcCCHHHHHH
Q 039362          283 LELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKRG--------MVPKSEHYACMVDALSRAGQVTEAYE  354 (440)
Q Consensus       283 ~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--------~~~~~~~~~~l~~~~~~~~~~~~a~~  354 (440)
                      ...++++.+.. +.+...+..+...+...|++++|...++++.+..        ......++..+...+...|++++|..
T Consensus       179 ~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~  257 (330)
T 3hym_B          179 ERFFSQALSIA-PEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKYAEALD  257 (330)
T ss_dssp             HHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHhC-CCChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcCHHHHHH
Confidence            88888877654 4456677778888888888888888888777641        12235577788888888888888888


Q ss_pred             HHhcC-CCCc-cHhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCCchHHHHHHHH-HhccCh
Q 039362          355 FICQM-PLEP-TASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVY-AIFKRW  415 (440)
Q Consensus       355 ~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~-~~~g~~  415 (440)
                      .+++. ...| +...+..+...+...|++++|...++++.+..|.++..+..++.++ ...|+.
T Consensus       258 ~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~g~~  321 (330)
T 3hym_B          258 YHRQALVLIPQNASTYSAIGYIHSLMGNFENAVDYFHTALGLRRDDTFSVTMLGHCIEMYIGDS  321 (330)
T ss_dssp             HHHHHHHHSTTCSHHHHHHHHHHHHHTCHHHHHHHHHTTTTTCSCCHHHHHHHHHHHHTTTTC-
T ss_pred             HHHHHHhhCccchHHHHHHHHHHHHhccHHHHHHHHHHHHccCCCchHHHHHHHHHHHHHhCch
Confidence            88877 3334 4567788888888888888888888888888888888888888877 445554

>1fch_A Peroxisomal targeting signal 1 receptor; protein-peptide complex, tetratricopeptide repeat, TPR, helical repeat, signaling protein; 2.20A {Homo sapiens} SCOP: a.118.8.1 PDB: 2j9q_A 3imz_B* 3r9a_B* 2c0m_A 2c0l_A

Probab=99.90  E-value=5.5e-22  Score=176.74  Aligned_cols=283  Identities=13%  Similarity=0.023  Sum_probs=220.1

Q ss_pred             hcCChHHHHH-HHhhCCC-----C--chhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChH
Q 039362          141 KCGEMNMARQ-VFELMPE-----R--NVVSWSALIDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALD  212 (440)
Q Consensus       141 ~~~~~~~a~~-~~~~~~~-----~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  212 (440)
                      ..|++++|.. .|++...     |  +...+..+...+...|++++|...|+++.+.. +.+...+..+..++...|+++
T Consensus        37 ~~~~~~~a~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~  115 (368)
T 1fch_A           37 WLSDYDDLTSATYDKGYQFEEENPLRDHPQPFEEGLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQEL  115 (368)
T ss_dssp             ---------CHHHHCCCCCCSSCTTTTCSSHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHhhhhhHHHhcCCCCcccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCcCHH
Confidence            3456666666 6665443     1  34567778888888888888888888888764 456677888888888888888


Q ss_pred             HHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCCchh-hHHH---------------HHHHHHhc
Q 039362          213 QGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQSDVL-IWNA---------------MIGGLAMH  276 (440)
Q Consensus       213 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~-~~~~---------------l~~~~~~~  276 (440)
                      +|...++++.+.. +.+..++..++.+|...|++++|...|+++....|+.. .+..               .+..+...
T Consensus       116 ~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  194 (368)
T 1fch_A          116 LAISALRRCLELK-PDNQTALMALAVSFTNESLQRQACEILRDWLRYTPAYAHLVTPAEEGAGGAGLGPSKRILGSLLSD  194 (368)
T ss_dssp             HHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSTTTGGGCC---------------CTTHHHHHH
T ss_pred             HHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHhhhhcccHHHHHHHHHhhc
Confidence            8888888888776 66777888888888888899999888888877655322 2211               23334488


Q ss_pred             CChHHHHHHHHHHHHcCCCc-cHhhHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHH
Q 039362          277 GFVKESLELFTEMQIVGITP-DEITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEF  355 (440)
Q Consensus       277 ~~~~~a~~~~~~m~~~~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  355 (440)
                      |++++|...++++.+..... +..++..+...+...|++++|...++++.+.. +.+...+..+...+...|++++|...
T Consensus       195 ~~~~~A~~~~~~a~~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~  273 (368)
T 1fch_A          195 SLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVR-PNDYLLWNKLGATLANGNQSEEAVAA  273 (368)
T ss_dssp             HHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhCcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHcCCHHHHHHH
Confidence            99999999999998864211 47788899999999999999999999998864 23567888999999999999999999


Q ss_pred             HhcC-CCCc-cHhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCC-----------CchHHHHHHHHHhccChHHHHHHH
Q 039362          356 ICQM-PLEP-TASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDH-----------DGRYVGLSNVYAIFKRWDEARTTR  422 (440)
Q Consensus       356 ~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~-----------~~~~~~l~~~~~~~g~~~~A~~~~  422 (440)
                      ++++ ...| +...+..+...+...|++++|...++++.+..|.+           ..+|..++.+|...|++++|..++
T Consensus       274 ~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  353 (368)
T 1fch_A          274 YRRALELQPGYIRSRYNLGISCINLGAHREAVEHFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALSMLGQSDAYGAAD  353 (368)
T ss_dssp             HHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC------CCCCCHHHHHHHHHHHHHHTCGGGHHHHH
T ss_pred             HHHHHHhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCccccccchhhHHHHHHHHHHHHhCChHhHHHhH
Confidence            9998 4444 56788999999999999999999999999988877           678999999999999999999988


Q ss_pred             HHHH
Q 039362          423 EAME  426 (440)
Q Consensus       423 ~~~~  426 (440)
                      ++.+
T Consensus       354 ~~~l  357 (368)
T 1fch_A          354 ARDL  357 (368)
T ss_dssp             TTCH
T ss_pred             HHHH
Confidence            6443

>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=99.90  E-value=4.4e-21  Score=168.10  Aligned_cols=268  Identities=10%  Similarity=0.008  Sum_probs=235.8

Q ss_pred             CchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHH
Q 039362          158 RNVVSWSALIDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLI  237 (440)
Q Consensus       158 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  237 (440)
                      .+...+..++..+...|++++|.++++++.... +.+...+..++.++...|++++|...++++.+.. +.+...+..+.
T Consensus        20 ~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~   97 (330)
T 3hym_B           20 ENLDVVVSLAERHYYNCDFKMCYKLTSVVMEKD-PFHASCLPVHIGTLVELNKANELFYLSHKLVDLY-PSNPVSWFAVG   97 (330)
T ss_dssp             CCCTTHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSTHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHH
Confidence            466778888999999999999999999998774 4455677778888899999999999999999876 67788999999


Q ss_pred             HHHHhcC-CHHHHHHHHhhhhhcCC-chhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChH
Q 039362          238 DMYAKCG-AIKEALIVFHGVEKHQS-DVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVM  315 (440)
Q Consensus       238 ~~~~~~g-~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~  315 (440)
                      ..+...| ++++|...|+++.+..| +...|..+...+...|++++|...++++.+.. +.+...+..+...+...|+++
T Consensus        98 ~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~  176 (330)
T 3hym_B           98 CYYLMVGHKNEHARRYLSKATTLEKTYGPAWIAYGHSFAVESEHDQAMAAYFTAAQLM-KGCHLPMLYIGLEYGLTNNSK  176 (330)
T ss_dssp             HHHHHSCSCHHHHHHHHHHHHTTCTTCTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHT-TTCSHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHhhhhHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhc-cccHHHHHHHHHHHHHHhhHH
Confidence            9999999 99999999999987766 57789999999999999999999999998874 444567777899999999999


Q ss_pred             HHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcC-CC----------CccHhHHHHHHHHHHhcCChhHH
Q 039362          316 EAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQM-PL----------EPTASMLGSLLTGCMNHGKLDLA  384 (440)
Q Consensus       316 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~----------~p~~~~~~~l~~~~~~~g~~~~a  384 (440)
                      +|...++++.+.. +.+...+..+...+...|++++|...++++ ..          .....++..+...+...|++++|
T Consensus       177 ~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A  255 (330)
T 3hym_B          177 LAERFFSQALSIA-PEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKYAEA  255 (330)
T ss_dssp             HHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHhC-CCChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcCHHHH
Confidence            9999999998864 235678889999999999999999999887 11          23457889999999999999999


Q ss_pred             HHHHHHHHhcCCCCCchHHHHHHHHHhccChHHHHHHHHHHHhcC
Q 039362          385 EIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEARTTREAMETRG  429 (440)
Q Consensus       385 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  429 (440)
                      ...++++.+..|.++.++..++.++...|++++|.+.++++.+..
T Consensus       256 ~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~  300 (330)
T 3hym_B          256 LDYHRQALVLIPQNASTYSAIGYIHSLMGNFENAVDYFHTALGLR  300 (330)
T ss_dssp             HHHHHHHHHHSTTCSHHHHHHHHHHHHHTCHHHHHHHHHTTTTTC
T ss_pred             HHHHHHHHhhCccchHHHHHHHHHHHHhccHHHHHHHHHHHHccC
Confidence            999999999999999999999999999999999999999887654

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.89  E-value=1.5e-19  Score=167.13  Aligned_cols=376  Identities=14%  Similarity=0.028  Sum_probs=303.9

Q ss_pred             HHHhhhc-CCCChHHHHHHHHHHHc----cCChhhHHHHHHHHHHcCCCCCcchHHHHHHHhhc----hhcHHHHHHHHH
Q 039362           17 CKVLSHL-SNPRIFYWNTVIRGYSK----SKNPNKSISLFVKMLRAGVSPDHLTYPFLAKASGR----LAKRELAVAVHA   87 (440)
Q Consensus        17 ~~~~~~~-~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~   87 (440)
                      .+.++.. .+.++.++..+...|..    .+++++|+..|++..+.|   +...+..|...|..    .+++++|.++|+
T Consensus        27 ~~~~~~~a~~g~~~a~~~lg~~y~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~  103 (490)
T 2xm6_A           27 LEQLKQKAESGEAKAQLELGYRYFQGNETTKDLTQAMDWFRRAAEQG---YTPAEYVLGLRYMNGEGVPQDYAQAVIWYK  103 (490)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHH
Confidence            3444433 36688888888888888    899999999999998864   56678888888888    899999999999


Q ss_pred             HHHHcCCCCcHHHHHHHHHHHHh----cCCHHHHHHHhhCCCCC-chhhHHHHHHHHHh----cCChHHHHHHHhhCCC-
Q 039362           88 QIAKTGYESDLFISNSLIHMYGS----CGDIVYAREVFDGMPTK-MSVSWNSMLDGYAK----CGEMNMARQVFELMPE-  157 (440)
Q Consensus        88 ~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~-~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~-  157 (440)
                      +..+.|   ++..+..|...|..    .+++++|...|++..+. +...+..+...|..    .++.++|.+.|++..+ 
T Consensus       104 ~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~  180 (490)
T 2xm6_A          104 KAALKG---LPQAQQNLGVMYHEGNGVKVDKAESVKWFRLAAEQGRDSGQQSMGDAYFEGDGVTRDYVMAREWYSKAAEQ  180 (490)
T ss_dssp             HHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT
T ss_pred             HHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHC
Confidence            999875   56777788888888    78999999999887654 56678888888877    7899999999998765 


Q ss_pred             CchhhHHHHHHHHHh----cCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHh----cCChHHHHHHHHHHHHcCCCCc
Q 039362          158 RNVVSWSALIDGYVK----CGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAH----LGALDQGRMMLRYMIDKGLSLT  229 (440)
Q Consensus       158 ~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~  229 (440)
                      .+...+..+...|..    .+++++|.+.|++..+.|   +...+..+...+..    .+++++|...+++..+.+   +
T Consensus       181 ~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~  254 (490)
T 2xm6_A          181 GNVWSCNQLGYMYSRGLGVERNDAISAQWYRKSATSG---DELGQLHLADMYYFGIGVTQDYTQSRVLFSQSAEQG---N  254 (490)
T ss_dssp             TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHTTT---C
T ss_pred             CCHHHHHHHHHHHhcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---C
Confidence            567788888888888    899999999999998765   45667777777775    789999999999998765   3


Q ss_pred             hhhHHHHHHHHHh----cCCHHHHHHHHhhhhhcCCchhhHHHHHHHHHhc-----CChHHHHHHHHHHHHcCCCccHhh
Q 039362          230 LPLQTSLIDMYAK----CGAIKEALIVFHGVEKHQSDVLIWNAMIGGLAMH-----GFVKESLELFTEMQIVGITPDEIT  300 (440)
Q Consensus       230 ~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~-----~~~~~a~~~~~~m~~~~~~p~~~~  300 (440)
                      ...+..+...|..    .+++++|...|++..+. .+...+..+...|...     +++++|+..|++..+.|   +...
T Consensus       255 ~~a~~~lg~~y~~g~~~~~d~~~A~~~~~~a~~~-~~~~a~~~Lg~~y~~~~~g~~~~~~~A~~~~~~a~~~~---~~~a  330 (490)
T 2xm6_A          255 SIAQFRLGYILEQGLAGAKEPLKALEWYRKSAEQ-GNSDGQYYLAHLYDKGAEGVAKNREQAISWYTKSAEQG---DATA  330 (490)
T ss_dssp             HHHHHHHHHHHHHTTTSSCCHHHHHHHHHHHHTT-TCHHHHHHHHHHHHHCBTTBCCCHHHHHHHHHHHHHTT---CHHH
T ss_pred             HHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHc-CCHHHHHHHHHHHHcCCCCCcCCHHHHHHHHHHHHhcC---CHHH
Confidence            5567778888887    89999999999998753 3556777788888877     89999999999998875   3345


Q ss_pred             HHHHHHHHHcCC---ChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHh----cCCHHHHHHHHhcCCCCccHhHHHHHHH
Q 039362          301 FLGLLSACAHGG---LVMEAWYFFKSLGKRGMVPKSEHYACMVDALSR----AGQVTEAYEFICQMPLEPTASMLGSLLT  373 (440)
Q Consensus       301 ~~~l~~~~~~~~---~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~p~~~~~~~l~~  373 (440)
                      +..+...+...|   +.++|...|++..+.+   +...+..+...|..    .+++++|.+.|++.--..+...+..+..
T Consensus       331 ~~~lg~~y~~~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~A~~~~~~~a~~~Lg~  407 (490)
T 2xm6_A          331 QANLGAIYFRLGSEEEHKKAVEWFRKAAAKG---EKAAQFNLGNALLQGKGVKKDEQQAAIWMRKAAEQGLSAAQVQLGE  407 (490)
T ss_dssp             HHHHHHHHHHSCCHHHHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHhCCCcccHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHH
Confidence            666777776655   7899999999998864   56788888888988    8999999999998822335677788888


Q ss_pred             HHHh----cCChhHHHHHHHHHHhcCCC---CCchHHHHHHHHHh
Q 039362          374 GCMN----HGKLDLAEIVGKKLVELQPD---HDGRYVGLSNVYAI  411 (440)
Q Consensus       374 ~~~~----~g~~~~a~~~~~~~~~~~~~---~~~~~~~l~~~~~~  411 (440)
                      .|..    .+++++|...|+++.+.+|+   ++.....++..+..
T Consensus       408 ~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~~a~~~l~~~~~~  452 (490)
T 2xm6_A          408 IYYYGLGVERDYVQAWAWFDTASTNDMNLFGTENRNITEKKLTAK  452 (490)
T ss_dssp             HHHHTSSSCCCHHHHHHHHHHHHHHHCCHHHHHHHHHHHTTSCHH
T ss_pred             HHHcCCCCCCCHHHHHHHHHHHHHCCCCCcCCHHHHHHHHhcCHh
Confidence            8887    89999999999999999854   55566666555443

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.89  E-value=1.6e-19  Score=168.68  Aligned_cols=398  Identities=7%  Similarity=0.016  Sum_probs=292.1

Q ss_pred             CCChHHHHHHHHHHHccCChhhHHHHHHHHHHcCCCCCcchHHHHHHHhhchhcHHHHHHHHHHHHHcCCCCcHHHHHHH
Q 039362           25 NPRIFYWNTVIRGYSKSKNPNKSISLFVKMLRAGVSPDHLTYPFLAKASGRLAKRELAVAVHAQIAKTGYESDLFISNSL  104 (440)
Q Consensus        25 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  104 (440)
                      +.|..+|..++. +.+.|++++|..+|+++.+. .+.+...|...+..+.+.|++++|..+|++++...  |+...+...
T Consensus        10 P~~~~~w~~l~~-~~~~~~~~~a~~~~e~al~~-~P~~~~~w~~~~~~~~~~~~~~~a~~~~~ral~~~--p~~~lw~~~   85 (530)
T 2ooe_A           10 PYDLDAWSILIR-EAQNQPIDKARKTYERLVAQ-FPSSGRFWKLYIEAEIKAKNYDKVEKLFQRCLMKV--LHIDLWKCY   85 (530)
T ss_dssp             TTCHHHHHHHHH-HHHSSCHHHHHHHHHHHHTT-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTTC--CCHHHHHHH
T ss_pred             CCCHHHHHHHHH-HHHhCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcC--CChHHHHHH
Confidence            557889999998 47889999999999999885 34456678999999999999999999999998864  477777766


Q ss_pred             HHHH-HhcCCHHHHHH----HhhCCC-----C-CchhhHHHHHHHHHh---------cCChHHHHHHHhhCCC-Cch---
Q 039362          105 IHMY-GSCGDIVYARE----VFDGMP-----T-KMSVSWNSMLDGYAK---------CGEMNMARQVFELMPE-RNV---  160 (440)
Q Consensus       105 ~~~~-~~~g~~~~a~~----~~~~~~-----~-~~~~~~~~l~~~~~~---------~~~~~~a~~~~~~~~~-~~~---  160 (440)
                      +... ...|+.+.|.+    +|+...     + .+...|...+....+         .|+++.|..+|++..+ |..   
T Consensus        86 ~~~~~~~~~~~~~a~~~~~~~~~~al~~~g~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~~a~~~y~~al~~P~~~~~  165 (530)
T 2ooe_A           86 LSYVRETKGKLPSYKEKMAQAYDFALDKIGMEIMSYQIWVDYINFLKGVEAVGSYAENQRITAVRRVYQRGCVNPMINIE  165 (530)
T ss_dssp             HHHHHHHTTTSTTHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHSCCCSSTTHHHHHHHHHHHHHHHTTSCCTTHH
T ss_pred             HHHHHHHccchhhHHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHhcCCCcccHHHHhHHHHHHHHHHHHHhchhhhHH
Confidence            6533 34566666554    555432     1 345567777766554         6889999999998775 321   


Q ss_pred             hhHHHHHHHH-------------HhcCCHHHHHHHHHHH------HhcC---CCCCH--------HHHHHHHHHHHhc--
Q 039362          161 VSWSALIDGY-------------VKCGDYKEALVIFEEM------RDVG---SKANE--------VTLVSVLCACAHL--  208 (440)
Q Consensus       161 ~~~~~l~~~~-------------~~~~~~~~a~~~~~~~------~~~~---~~~~~--------~~~~~l~~~~~~~--  208 (440)
                      ..|.......             .+.+++..|..++...      .+..   ++|+.        ..+...+......  
T Consensus       166 ~~~~~~~~~e~~~~~~~~~~~l~~~~~~~~~A~~~~~~~~~~~~~l~~~~~~~~p~~~~~~~~~~~~w~~~~~~e~~~~~  245 (530)
T 2ooe_A          166 QLWRDYNKYEEGINIHLAKKMIEDRSRDYMNARRVAKEYETVMKGLDRNAPSVPPQNTPQEAQQVDMWKKYIQWEKSNPL  245 (530)
T ss_dssp             HHHHHHHHHHHHHCHHHHHHHHHTTHHHHHHHHHHHHHHHHHHHHCCSSSCCCCCC--CCHHHHHHHHHHHHHHHHHCSS
T ss_pred             HHHHHHHHHHHhhchhHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhccccccCCCCCChhHHHHHHHHHHHHHHHHcCCc
Confidence            2333222110             1345677777777653      2221   24431        3344333322221  


Q ss_pred             --CCh----HHHHHHHHHHHHcCCCCchhhHHHHHHHHHh-------cCCHH-------HHHHHHhhhhh-cCC-chhhH
Q 039362          209 --GAL----DQGRMMLRYMIDKGLSLTLPLQTSLIDMYAK-------CGAIK-------EALIVFHGVEK-HQS-DVLIW  266 (440)
Q Consensus       209 --~~~----~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-------~g~~~-------~A~~~~~~~~~-~~~-~~~~~  266 (440)
                        ++.    ..+..+|++.+... +.+...|..++..+.+       .|+++       +|..+|++..+ ..| +...|
T Consensus       246 ~~~~~~~~~~~a~~~y~~al~~~-p~~~~~w~~~~~~~~~~~~~~~~~g~~~~a~~~~~~A~~~~~~Al~~~~p~~~~l~  324 (530)
T 2ooe_A          246 RTEDQTLITKRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLY  324 (530)
T ss_dssp             CCSCSHHHHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHHTTTTCSSCHHHH
T ss_pred             cCCcchhHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhchhhhhccchhhhhhhhHHHHHHHHHHHHHhCcccHHHH
Confidence              232    37778899988875 6778889888888876       79987       99999999986 556 57789


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHcCCCccH--hhHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHH-H
Q 039362          267 NAMIGGLAMHGFVKESLELFTEMQIVGITPDE--ITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDA-L  343 (440)
Q Consensus       267 ~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~  343 (440)
                      ..++..+.+.|++++|..+|+++.+.  .|+.  ..|..++..+.+.|++++|..+|++..+.. +.+...|...+.. +
T Consensus       325 ~~~~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~~~-~~~~~~~~~~a~~~~  401 (530)
T 2ooe_A          325 FAYADYEESRMKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA-RTRHHVYVTAALMEY  401 (530)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHS--SSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCT-TCCTHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCCHHHHHHHHHHHhCc--cccCchHHHHHHHHHHHHhcCHHHHHHHHHHHHhcc-CCchHHHHHHHHHHH
Confidence            99999999999999999999999985  4542  478888888888999999999999998853 1223333332222 3


Q ss_pred             HhcCCHHHHHHHHhcC-CCCc-cHhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCCc----hHHHHHHHHHhccChHH
Q 039362          344 SRAGQVTEAYEFICQM-PLEP-TASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDG----RYVGLSNVYAIFKRWDE  417 (440)
Q Consensus       344 ~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~----~~~~l~~~~~~~g~~~~  417 (440)
                      ...|+.++|..+|++. ...| +...|..++..+.+.|+.++|..+|++++...|.++.    .|...+......|+.+.
T Consensus       402 ~~~~~~~~A~~~~e~al~~~p~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~~~~~~~~~~~lw~~~~~~e~~~G~~~~  481 (530)
T 2ooe_A          402 YCSKDKSVAFKIFELGLKKYGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLAS  481 (530)
T ss_dssp             HHTCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHSCCSCGGGCHHHHHHHHHHHHHSSCHHH
T ss_pred             HHcCChhHHHHHHHHHHHHCCCCHHHHHHHHHHHHhCCCHhhHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHH
Confidence            4689999999999987 4445 5688899999999999999999999999998876665    77788888888999999


Q ss_pred             HHHHHHHHHhcCC
Q 039362          418 ARTTREAMETRGV  430 (440)
Q Consensus       418 A~~~~~~~~~~~~  430 (440)
                      +..+.+++.+...
T Consensus       482 ~~~~~~r~~~~~p  494 (530)
T 2ooe_A          482 ILKVEKRRFTAFR  494 (530)
T ss_dssp             HHHHHHHHHHHTH
T ss_pred             HHHHHHHHHHHCc
Confidence            9999999877643

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.89  E-value=8.9e-21  Score=174.85  Aligned_cols=284  Identities=11%  Similarity=0.011  Sum_probs=156.5

Q ss_pred             ChHHHHHHHhhCCC--C-chhhHHHHHHH---HHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHh----cCChHH
Q 039362          144 EMNMARQVFELMPE--R-NVVSWSALIDG---YVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAH----LGALDQ  213 (440)
Q Consensus       144 ~~~~a~~~~~~~~~--~-~~~~~~~l~~~---~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~  213 (440)
                      ++++|+..|++..+  | ++..+..+..+   +...++.++|++.+++..+.+ +.+...+..+...+..    .+++++
T Consensus       153 ~y~~A~~~~~kal~~~p~~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l~-p~~~~~~~~l~~~~~~~~~~~~~~~~  231 (472)
T 4g1t_A          153 QNERAKVCFEKALEKKPKNPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIRLN-PDNQYLKVLLALKLHKMREEGEEEGE  231 (472)
T ss_dssp             HHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHHC-SSCHHHHHHHHHHHHHCC------CH
T ss_pred             cHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhcC-CcchHHHHHHHHHHHHHHhhhhHHHH
Confidence            45555555555443  2 22333333322   233455556666666655543 2233344333333322    345566


Q ss_pred             HHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCCc-hhhHHHHHHHHHh-----------------
Q 039362          214 GRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQSD-VLIWNAMIGGLAM-----------------  275 (440)
Q Consensus       214 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~l~~~~~~-----------------  275 (440)
                      |.+.+++..+.. +.+..++..+...|...|++++|...++++.+..|+ ..++..+...|..                 
T Consensus       232 a~~~~~~al~~~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~y~~~~~~~~~~~~~~~~~~~  310 (472)
T 4g1t_A          232 GEKLVEEALEKA-PGVTDVLRSAAKFYRRKDEPDKAIELLKKALEYIPNNAYLHCQIGCCYRAKVFQVMNLRENGMYGKR  310 (472)
T ss_dssp             HHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHC------CHH
T ss_pred             HHHHHHHHHHhC-ccHHHHHHHHHHHHHHcCchHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHHhhhHHHHHHHHHH
Confidence            666666666554 455556666666666666666666666666655553 3344444433321                 


Q ss_pred             --cCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCCc--chHHHHHH-HHHhcCCHH
Q 039362          276 --HGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKS--EHYACMVD-ALSRAGQVT  350 (440)
Q Consensus       276 --~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~l~~-~~~~~~~~~  350 (440)
                        .+.++.|...+++..+.. +.+..++..+...+...|++++|+..|+++.+....+..  ..+..+.. .+...|+++
T Consensus       311 ~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~kaL~~~~~~~~~~~~~~~~~~~~~~~~~~~~  389 (472)
T 4g1t_A          311 KLLELIGHAVAHLKKADEAN-DNLFRVCSILASLHALADQYEEAEYYFQKEFSKELTPVAKQLLHLRYGNFQLYQMKCED  389 (472)
T ss_dssp             HHHHHHHHHHHHHHHHHHHC-TTTCCCHHHHHHHHHHTTCHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTSSCHH
T ss_pred             HHHhhHHHHHHHHHHHhhcC-CchhhhhhhHHHHHHHhccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHHCCCHH
Confidence              223567777888777654 445567888888888999999999999988875433221  12222322 234678899


Q ss_pred             HHHHHHhcC-CCCccHhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCCchHHHHHHHHHhccChHHHHHHHHHHHhcC
Q 039362          351 EAYEFICQM-PLEPTASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEARTTREAMETRG  429 (440)
Q Consensus       351 ~a~~~~~~~-~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  429 (440)
                      +|+..+++. .+.|+......         ....+..++++.++.+|.++.+|..++.+|...|++++|.+.|++.++.+
T Consensus       390 ~Ai~~y~kal~i~~~~~~~~~---------~~~~l~~~~~~~l~~~p~~~~~~~~LG~~~~~~g~~~~A~~~y~kALe~~  460 (472)
T 4g1t_A          390 KAIHHFIEGVKINQKSREKEK---------MKDKLQKIAKMRLSKNGADSEALHVLAFLQELNEKMQQADEDSERGLESG  460 (472)
T ss_dssp             HHHHHHHHHHHSCCCCHHHHH---------HHHHHHHHHHHHHHHCC-CTTHHHHHHHHHHHHHHCC-------------
T ss_pred             HHHHHHHHHHhcCcccHHHHH---------HHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence            999988887 66665543222         23455677888888999999999999999999999999999999999988


Q ss_pred             CccCCCCCCC
Q 039362          430 VKKYPGWSFV  439 (440)
Q Consensus       430 ~~~~~~~~~~  439 (440)
                      .......+|+
T Consensus       461 ~~~p~a~~~~  470 (472)
T 4g1t_A          461 SLIPSASSWN  470 (472)
T ss_dssp             ----------
T ss_pred             CCCCcHhhcC
Confidence            7766677775

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.89  E-value=5.6e-19  Score=163.29  Aligned_cols=365  Identities=14%  Similarity=0.055  Sum_probs=301.4

Q ss_pred             hhHHHHHHHHHHcCCCCCcchHHHHHHHhhc----hhcHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHh----cCCHHH
Q 039362           45 NKSISLFVKMLRAGVSPDHLTYPFLAKASGR----LAKRELAVAVHAQIAKTGYESDLFISNSLIHMYGS----CGDIVY  116 (440)
Q Consensus        45 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~  116 (440)
                      ..++..++...+.   .+...+..+...|..    .+++++|...|+...+.|   ++..+..|...|..    .+++++
T Consensus        24 ~~~~~~~~~~a~~---g~~~a~~~lg~~y~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~   97 (490)
T 2xm6_A           24 NVNLEQLKQKAES---GEAKAQLELGYRYFQGNETTKDLTQAMDWFRRAAEQG---YTPAEYVLGLRYMNGEGVPQDYAQ   97 (490)
T ss_dssp             -CCHHHHHHHHHT---TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHH
T ss_pred             hHHHHHHHHHHHC---CCHHHHHHHHHHHHcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHH
Confidence            3446666666554   366777888888877    899999999999999875   56778889999998    899999


Q ss_pred             HHHHhhCCCCC-chhhHHHHHHHHHh----cCChHHHHHHHhhCCC-CchhhHHHHHHHHHh----cCCHHHHHHHHHHH
Q 039362          117 AREVFDGMPTK-MSVSWNSMLDGYAK----CGEMNMARQVFELMPE-RNVVSWSALIDGYVK----CGDYKEALVIFEEM  186 (440)
Q Consensus       117 a~~~~~~~~~~-~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~-~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~  186 (440)
                      |...|++..+. +...+..|...|..    .+++++|...|++..+ .+...+..+...|..    .+++++|.+.|++.
T Consensus        98 A~~~~~~a~~~~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a  177 (490)
T 2xm6_A           98 AVIWYKKAALKGLPQAQQNLGVMYHEGNGVKVDKAESVKWFRLAAEQGRDSGQQSMGDAYFEGDGVTRDYVMAREWYSKA  177 (490)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHH
Confidence            99999987654 56678888888888    8899999999998765 466788888888887    78999999999999


Q ss_pred             HhcCCCCCHHHHHHHHHHHHh----cCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHh----cCCHHHHHHHHhhhhh
Q 039362          187 RDVGSKANEVTLVSVLCACAH----LGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAK----CGAIKEALIVFHGVEK  258 (440)
Q Consensus       187 ~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~  258 (440)
                      .+.|   +...+..+...+..    .+++++|...|++..+.+   +...+..+...|..    .+++++|..+|++..+
T Consensus       178 ~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~a~~  251 (490)
T 2xm6_A          178 AEQG---NVWSCNQLGYMYSRGLGVERNDAISAQWYRKSATSG---DELGQLHLADMYYFGIGVTQDYTQSRVLFSQSAE  251 (490)
T ss_dssp             HHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHT
T ss_pred             HHCC---CHHHHHHHHHHHhcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHH
Confidence            8875   56777788888877    899999999999998865   45677788888886    8899999999999875


Q ss_pred             cCCchhhHHHHHHHHHh----cCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcC-----CChHHHHHHHHHHhhcCC
Q 039362          259 HQSDVLIWNAMIGGLAM----HGFVKESLELFTEMQIVGITPDEITFLGLLSACAHG-----GLVMEAWYFFKSLGKRGM  329 (440)
Q Consensus       259 ~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~-----~~~~~a~~~~~~~~~~~~  329 (440)
                      . .+...+..+...|..    .+++++|+..|++..+.|   +...+..+...+...     +++++|...|++..+.+ 
T Consensus       252 ~-~~~~a~~~lg~~y~~g~~~~~d~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~~~~g~~~~~~~A~~~~~~a~~~~-  326 (490)
T 2xm6_A          252 Q-GNSIAQFRLGYILEQGLAGAKEPLKALEWYRKSAEQG---NSDGQYYLAHLYDKGAEGVAKNREQAISWYTKSAEQG-  326 (490)
T ss_dssp             T-TCHHHHHHHHHHHHHTTTSSCCHHHHHHHHHHHHTTT---CHHHHHHHHHHHHHCBTTBCCCHHHHHHHHHHHHHTT-
T ss_pred             C-CCHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHcCCCCCcCCHHHHHHHHHHHHhcC-
Confidence            3 355667777777877    899999999999998765   344666777777776     89999999999999865 


Q ss_pred             CCCcchHHHHHHHHHhcC---CHHHHHHHHhcCCCCccHhHHHHHHHHHHh----cCChhHHHHHHHHHHhcCCCCCchH
Q 039362          330 VPKSEHYACMVDALSRAG---QVTEAYEFICQMPLEPTASMLGSLLTGCMN----HGKLDLAEIVGKKLVELQPDHDGRY  402 (440)
Q Consensus       330 ~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~  402 (440)
                        +...+..+...|...|   ++++|.++|++.-...++..+..+...|..    .+++++|...|+++.+.+  ++..+
T Consensus       327 --~~~a~~~lg~~y~~~g~~~~~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~A~~~~--~~~a~  402 (490)
T 2xm6_A          327 --DATAQANLGAIYFRLGSEEEHKKAVEWFRKAAAKGEKAAQFNLGNALLQGKGVKKDEQQAAIWMRKAAEQG--LSAAQ  402 (490)
T ss_dssp             --CHHHHHHHHHHHHHSCCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT--CHHHH
T ss_pred             --CHHHHHHHHHHHHhCCCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHhCC--CHHHH
Confidence              4567777888888766   789999999988223567788889988888    899999999999999875  46688


Q ss_pred             HHHHHHHHh----ccChHHHHHHHHHHHhcCC
Q 039362          403 VGLSNVYAI----FKRWDEARTTREAMETRGV  430 (440)
Q Consensus       403 ~~l~~~~~~----~g~~~~A~~~~~~~~~~~~  430 (440)
                      ..++.+|..    .+++++|...|++..+.+.
T Consensus       403 ~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~  434 (490)
T 2xm6_A          403 VQLGEIYYYGLGVERDYVQAWAWFDTASTNDM  434 (490)
T ss_dssp             HHHHHHHHHTSSSCCCHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCC
Confidence            999999998    8999999999999998763

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.88  E-value=2.8e-21  Score=171.90  Aligned_cols=263  Identities=13%  Similarity=0.019  Sum_probs=214.2

Q ss_pred             chhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHH
Q 039362          159 NVVSWSALIDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLID  238 (440)
Q Consensus       159 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  238 (440)
                      +...+..+...+.+.|++++|...|+++.... +.+...+..+..++...|++++|...++++.+.. +.+..++..++.
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            44568888888889999999999999888764 5567788888889999999999999999988876 667788888999


Q ss_pred             HHHhcCCHHHHHHHHhhhhhcCCc-hhh----------HHHHHHHHHhcCChHHHHHHHHHHHHcCCC-ccHhhHHHHHH
Q 039362          239 MYAKCGAIKEALIVFHGVEKHQSD-VLI----------WNAMIGGLAMHGFVKESLELFTEMQIVGIT-PDEITFLGLLS  306 (440)
Q Consensus       239 ~~~~~g~~~~A~~~~~~~~~~~~~-~~~----------~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~-p~~~~~~~l~~  306 (440)
                      +|...|++++|...|+++.+..|+ ...          +..+...+...|++++|...++++.+.... ++..++..+..
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            999999999999999998876553 222          234577888999999999999999887421 15778889999


Q ss_pred             HHHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcC-CCCc-cHhHHHHHHHHHHhcCChhHH
Q 039362          307 ACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQM-PLEP-TASMLGSLLTGCMNHGKLDLA  384 (440)
Q Consensus       307 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a  384 (440)
                      .+...|++++|...|+++.+.. +.+..++..+...|...|++++|.+.++++ ...| +..++..+..++...|++++|
T Consensus       222 ~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A  300 (365)
T 4eqf_A          222 LFHLSGEFNRAIDAFNAALTVR-PEDYSLWNRLGATLANGDRSEEAVEAYTRALEIQPGFIRSRYNLGISCINLGAYREA  300 (365)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHCCCHHHH
Confidence            9999999999999999998864 235778999999999999999999999988 4455 467889999999999999999


Q ss_pred             HHHHHHHHhcCCC------------CCchHHHHHHHHHhccChHHHHHHHHH
Q 039362          385 EIVGKKLVELQPD------------HDGRYVGLSNVYAIFKRWDEARTTREA  424 (440)
Q Consensus       385 ~~~~~~~~~~~~~------------~~~~~~~l~~~~~~~g~~~~A~~~~~~  424 (440)
                      ...++++++..|.            +..+|..++.++...|+.+.|.++.++
T Consensus       301 ~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  352 (365)
T 4eqf_A          301 VSNFLTALSLQRKSRNQQQVPHPAISGNIWAALRIALSLMDQPELFQAANLG  352 (365)
T ss_dssp             HHHHHHHHHHHHCC------------CHHHHHHHHHHHHHTCHHHHHHHHTT
T ss_pred             HHHHHHHHHhCcccCCCcccchhhhHHHHHHHHHHHHHHcCcHHHHHHHHHh
Confidence            9999999998766            356789999999999999998887754

>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=99.88  E-value=3.3e-20  Score=161.73  Aligned_cols=373  Identities=13%  Similarity=0.130  Sum_probs=174.1

Q ss_pred             CChhhHHHHhhhcCCCChHHHHHHHHHHHccCChhhHHHHHHHHHHcCCCCCcchHHHHHHHhhchhcHHHHHHHHHHHH
Q 039362           11 GNIDYSCKVLSHLSNPRIFYWNTVIRGYSKSKNPNKSISLFVKMLRAGVSPDHLTYPFLAKASGRLAKRELAVAVHAQIA   90 (440)
Q Consensus        11 g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~   90 (440)
                      |++++|.+++++++.|+  +|..|+.++.+.|++++|++.|.+.      +|..+|..++..+...|++++|++.++..+
T Consensus        17 ~~ld~A~~fae~~~~~~--vWs~La~A~l~~g~~~eAIdsfika------~D~~~y~~V~~~ae~~g~~EeAi~yl~~ar   88 (449)
T 1b89_A           17 GNLDRAYEFAERCNEPA--VWSQLAKAQLQKGMVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVKYLQMAR   88 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             cCHHHHHHHHHhCCChH--HHHHHHHHHHHcCCHHHHHHHHHcC------CCHHHHHHHHHHHHhCCCHHHHHHHHHHHH
Confidence            89999999999997664  9999999999999999999999653      677899999999999999999999888777


Q ss_pred             HcCCCCcHHHHHHHHHHHHhcCCHHHHHHHhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHhhCCCCchhhHHHHHHHH
Q 039362           91 KTGYESDLFISNSLIHMYGSCGDIVYAREVFDGMPTKMSVSWNSMLDGYAKCGEMNMARQVFELMPERNVVSWSALIDGY  170 (440)
Q Consensus        91 ~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~  170 (440)
                      +.  .+++.+.+.++.+|.+.|+++++.++++.   |+..+|..+...|...|.+++|...|..+     ..|..++.++
T Consensus        89 k~--~~~~~i~~~Li~~Y~Klg~l~e~e~f~~~---pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a-----~n~~~LA~~L  158 (449)
T 1b89_A           89 KK--ARESYVETELIFALAKTNRLAELEEFING---PNNAHIQQVGDRCYDEKMYDAAKLLYNNV-----SNFGRLASTL  158 (449)
T ss_dssp             ----------------------CHHHHTTTTTC---C----------------CTTTHHHHHHHT-----TCHHHHHHHH
T ss_pred             Hh--CccchhHHHHHHHHHHhCCHHHHHHHHcC---CcHHHHHHHHHHHHHcCCHHHHHHHHHHh-----hhHHHHHHHH
Confidence            64  44678899999999999999999988864   67779999999999999999999999988     4899999999


Q ss_pred             HhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHH
Q 039362          171 VKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEAL  250 (440)
Q Consensus       171 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  250 (440)
                      .+.|++++|.+.+.++      .+..+|..++.+|...|+++.|......     +..++.....++..|.+.|++++|.
T Consensus       159 ~~Lg~yq~AVea~~KA------~~~~~Wk~v~~aCv~~~ef~lA~~~~l~-----L~~~ad~l~~lv~~Yek~G~~eEai  227 (449)
T 1b89_A          159 VHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCGLH-----IVVHADELEELINYYQDRGYFEELI  227 (449)
T ss_dssp             HTTTCHHHHHHHHHHH------TCHHHHHHHHHHHHHTTCHHHHHHTTTT-----TTTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHhccHHHHHHHHHHc------CCchhHHHHHHHHHHcCcHHHHHHHHHH-----HHhCHhhHHHHHHHHHHCCCHHHHH
Confidence            9999999999999988      2678999999999999999999555443     2344444567899999999999999


Q ss_pred             HHHhhhhhcCC-chhhHHHHHHHHHhcCChHHHHHHHHHHHH-cCCCc------cHhhHHHHHHHHHcCCChHHHHHHHH
Q 039362          251 IVFHGVEKHQS-DVLIWNAMIGGLAMHGFVKESLELFTEMQI-VGITP------DEITFLGLLSACAHGGLVMEAWYFFK  322 (440)
Q Consensus       251 ~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~-~~~~p------~~~~~~~l~~~~~~~~~~~~a~~~~~  322 (440)
                      .+++...+..+ ....|+.+.-.|++- ++++.++.++.... -+++|      +...|.-+...|.+.++++.|...  
T Consensus       228 ~lLe~aL~le~ah~~~ftel~il~~ky-~p~k~~ehl~~~~~~ini~k~~~~~~~~~~w~e~~~ly~~~~e~d~A~~t--  304 (449)
T 1b89_A          228 TMLEAALGLERAHMGMFTELAILYSKF-KPQKMREHLELFWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAIIT--  304 (449)
T ss_dssp             HHHHHHTTSTTCCHHHHHHHHHHHHTT-CHHHHHHHHHHHSTTSCHHHHHHHHHTTTCHHHHHHHHHHTTCHHHHHHH--
T ss_pred             HHHHHHhCCcHHHHHHHHHHHHHHHhc-CHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHHHHhhchHHHHHHH--
Confidence            99999886644 567788887777765 45555555544322 22333      345678888888888999888653  


Q ss_pred             HHhhc-CC-------------CCCcchHHHHHHHHHhcCCHHHHHHHHhcCCCCccHhHHHHHHHHHHhcCChhHHHHHH
Q 039362          323 SLGKR-GM-------------VPKSEHYACMVDALSRAGQVTEAYEFICQMPLEPTASMLGSLLTGCMNHGKLDLAEIVG  388 (440)
Q Consensus       323 ~~~~~-~~-------------~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~  388 (440)
                       |.+. ..             ..+...|...+..|... .+..--.++.-+.-+.|+   ...+..+.+.|+..-+..++
T Consensus       305 -m~~h~~~a~~~~~f~~~~~kv~n~elyYkai~fyl~~-~p~~l~~ll~~l~~~ld~---~r~v~~~~~~~~l~l~~~yl  379 (449)
T 1b89_A          305 -MMNHPTDAWKEGQFKDIITKVANVELYYRAIQFYLEF-KPLLLNDLLMVLSPRLDH---TRAVNYFSKVKQLPLVKPYL  379 (449)
T ss_dssp             -HHHSTTTTCCHHHHHHHHHHCSSTHHHHHHHHHHHHH-CGGGHHHHHHHHGGGCCH---HHHHHHHHHTTCTTTTHHHH
T ss_pred             -HHhCChhhhhhHHHHHHHhchhHHHHHHHHHHHHHhc-CHHHHHHHHHHHHhccCc---HHHHHHHHHcCCcHHHHHHH
Confidence             3332 01             12445555555555521 111111111111101111   12233344555555555555


Q ss_pred             HHHHhcCCCCCchHHHHHHHHHhccChHHHHHHH
Q 039362          389 KKLVELQPDHDGRYVGLSNVYAIFKRWDEARTTR  422 (440)
Q Consensus       389 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  422 (440)
                      +.+..  .++..+-.++-..|....+++.-+.-+
T Consensus       380 ~~v~~--~n~~~vnealn~l~ieeed~~~lr~si  411 (449)
T 1b89_A          380 RSVQN--HNNKSVNESLNNLFITEEDYQALRTSI  411 (449)
T ss_dssp             HHHHT--TCCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHH--hhHHHHHHHHHHHHHhhhhHHHHHHHH
Confidence            44432  233445556777777777776555443

>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=99.87  E-value=2e-20  Score=166.62  Aligned_cols=279  Identities=13%  Similarity=0.033  Sum_probs=213.6

Q ss_pred             hcCCHHHHHH-HhhCCCC---C----chhhHHHHHHHHHhcCChHHHHHHHhhCCC---CchhhHHHHHHHHHhcCCHHH
Q 039362          110 SCGDIVYARE-VFDGMPT---K----MSVSWNSMLDGYAKCGEMNMARQVFELMPE---RNVVSWSALIDGYVKCGDYKE  178 (440)
Q Consensus       110 ~~g~~~~a~~-~~~~~~~---~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~  178 (440)
                      ..|++++|.. .|++...   .    +...+..+...+.+.|++++|...|+++.+   .+..++..+..++...|++++
T Consensus        37 ~~~~~~~a~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~  116 (368)
T 1fch_A           37 WLSDYDDLTSATYDKGYQFEEENPLRDHPQPFEEGLRRLQEGDLPNAVLLFEAAVQQDPKHMEAWQYLGTTQAENEQELL  116 (368)
T ss_dssp             ---------CHHHHCCCCCCSSCTTTTCSSHHHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHhhhhhHHHhcCCCCcccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCcCHHH
Confidence            4477788887 7775542   1    234577788888888888888888888764   356678888888999999999


Q ss_pred             HHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHH----------------HHHHHHHh
Q 039362          179 ALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQT----------------SLIDMYAK  242 (440)
Q Consensus       179 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~----------------~l~~~~~~  242 (440)
                      |...++++.+.. +.+..++..+..++...|++++|...++.+.+.. +.+...+.                .+...+ .
T Consensus       117 A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~  193 (368)
T 1fch_A          117 AISALRRCLELK-PDNQTALMALAVSFTNESLQRQACEILRDWLRYT-PAYAHLVTPAEEGAGGAGLGPSKRILGSLL-S  193 (368)
T ss_dssp             HHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS-TTTGGGCC---------------CTTHHHH-H
T ss_pred             HHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCcHHHHHHHHHHhhhhcccHHHHHHHHHh-h
Confidence            999999888775 5567788888888899999999999999888765 33333322                233334 8


Q ss_pred             cCCHHHHHHHHhhhhhcCCc---hhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHH
Q 039362          243 CGAIKEALIVFHGVEKHQSD---VLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWY  319 (440)
Q Consensus       243 ~g~~~~A~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~  319 (440)
                      .|++++|...|+++.+..|+   ..++..+...+...|++++|+..++++.... +.+..++..+...+...|++++|..
T Consensus       194 ~~~~~~A~~~~~~a~~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~  272 (368)
T 1fch_A          194 DSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVR-PNDYLLWNKLGATLANGNQSEEAVA  272 (368)
T ss_dssp             HHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             cccHHHHHHHHHHHHHhCcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHcCCHHHHHH
Confidence            89999999999998877665   6778888999999999999999999988764 4456788889999999999999999


Q ss_pred             HHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcC-CCCcc------------HhHHHHHHHHHHhcCChhHHHH
Q 039362          320 FFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQM-PLEPT------------ASMLGSLLTGCMNHGKLDLAEI  386 (440)
Q Consensus       320 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p~------------~~~~~~l~~~~~~~g~~~~a~~  386 (440)
                      .++++.+.. +.+...+..+...|.+.|++++|...++++ ...|+            ..+|..+..++...|++++|..
T Consensus       273 ~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  351 (368)
T 1fch_A          273 AYRRALELQ-PGYIRSRYNLGISCINLGAHREAVEHFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALSMLGQSDAYGA  351 (368)
T ss_dssp             HHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC------CCCCCHHHHHHHHHHHHHHTCGGGHHH
T ss_pred             HHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCccccccchhhHHHHHHHHHHHHhCChHhHHH
Confidence            999988864 235677888999999999999999999887 22222            5788899999999999999998


Q ss_pred             HHHHHHh
Q 039362          387 VGKKLVE  393 (440)
Q Consensus       387 ~~~~~~~  393 (440)
                      ++++.++
T Consensus       352 ~~~~~l~  358 (368)
T 1fch_A          352 ADARDLS  358 (368)
T ss_dssp             HHTTCHH
T ss_pred             hHHHHHH
Confidence            8875543

>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=99.87  E-value=3.1e-20  Score=162.45  Aligned_cols=265  Identities=12%  Similarity=-0.011  Sum_probs=212.5

Q ss_pred             chhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHH
Q 039362          159 NVVSWSALIDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLID  238 (440)
Q Consensus       159 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  238 (440)
                      +...+..+...+...|++++|..+|+++.+.. +.+...+..+..++...|++++|...++++.+.. +.+...+..+..
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            34456677778888888888888888887764 4466677777888888888888888888888775 566777888888


Q ss_pred             HHHhcCCHHHHHHHHhhhhhcCCch-hhHHHH--------------HH-HHHhcCChHHHHHHHHHHHHcCCCccHhhHH
Q 039362          239 MYAKCGAIKEALIVFHGVEKHQSDV-LIWNAM--------------IG-GLAMHGFVKESLELFTEMQIVGITPDEITFL  302 (440)
Q Consensus       239 ~~~~~g~~~~A~~~~~~~~~~~~~~-~~~~~l--------------~~-~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~  302 (440)
                      +|...|++++|...++++.+..|+. ..+..+              .. .+...|++++|...++++.+.. +.+...+.
T Consensus        98 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~  176 (327)
T 3cv0_A           98 SHTNEHNANAALASLRAWLLSQPQYEQLGSVNLQADVDIDDLNVQSEDFFFAAPNEYRECRTLLHAALEMN-PNDAQLHA  176 (327)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHTSTTTTTC--------------------CCTTSHHHHHHHHHHHHHHHHHS-TTCHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCCccHHHHHHHhHHHHHHHHHHHHHHhHHHHHcccHHHHHHHHHHHHhhC-CCCHHHHH
Confidence            8888888888888888887765543 333333              22 3677889999999999998774 44677888


Q ss_pred             HHHHHHHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcC-CCCc-cHhHHHHHHHHHHhcCC
Q 039362          303 GLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQM-PLEP-TASMLGSLLTGCMNHGK  380 (440)
Q Consensus       303 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~  380 (440)
                      .+...+...|++++|...++++.+.. +.+...+..+...+...|++++|.+.++++ ...| +...+..+...+...|+
T Consensus       177 ~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~g~  255 (327)
T 3cv0_A          177 SLGVLYNLSNNYDSAAANLRRAVELR-PDDAQLWNKLGATLANGNRPQEALDAYNRALDINPGYVRVMYNMAVSYSNMSQ  255 (327)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhcc
Confidence            89999999999999999999998864 235677888999999999999999999987 3344 56788899999999999


Q ss_pred             hhHHHHHHHHHHhcCCC------------CCchHHHHHHHHHhccChHHHHHHHHHHHh
Q 039362          381 LDLAEIVGKKLVELQPD------------HDGRYVGLSNVYAIFKRWDEARTTREAMET  427 (440)
Q Consensus       381 ~~~a~~~~~~~~~~~~~------------~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  427 (440)
                      +++|...++++.+..|.            ++.++..++.++...|++++|..++++.++
T Consensus       256 ~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~  314 (327)
T 3cv0_A          256 YDLAAKQLVRAIYMQVGGTTPTGEASREATRSMWDFFRMLLNVMNRPDLVELTYAQNVE  314 (327)
T ss_dssp             HHHHHHHHHHHHHHHTTSCC-----CCTHHHHHHHHHHHHHHHTTCHHHHHHHTTCCSH
T ss_pred             HHHHHHHHHHHHHhCCccccccccchhhcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Confidence            99999999999999988            677899999999999999999999875543

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.85  E-value=4.7e-20  Score=164.03  Aligned_cols=259  Identities=11%  Similarity=0.016  Sum_probs=206.5

Q ss_pred             chhhHHHHHHHHHhcCChHHHHHHHhhCCC---CchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHH
Q 039362          128 MSVSWNSMLDGYAKCGEMNMARQVFELMPE---RNVVSWSALIDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCA  204 (440)
Q Consensus       128 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  204 (440)
                      +...+..+...+.+.|++++|+..|+++.+   .+..+|..+...+...|++++|+..|+++.+.. +.+...+..+..+
T Consensus        64 ~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~  142 (365)
T 4eqf_A           64 DWPGAFEEGLKRLKEGDLPVTILFMEAAILQDPGDAEAWQFLGITQAENENEQAAIVALQRCLELQ-PNNLKALMALAVS  142 (365)
T ss_dssp             TCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHH
Confidence            345688888888899999999999988764   457788899999999999999999999988764 4567788889999


Q ss_pred             HHhcCChHHHHHHHHHHHHcCCCCchh----------hHHHHHHHHHhcCCHHHHHHHHhhhhhcCCc---hhhHHHHHH
Q 039362          205 CAHLGALDQGRMMLRYMIDKGLSLTLP----------LQTSLIDMYAKCGAIKEALIVFHGVEKHQSD---VLIWNAMIG  271 (440)
Q Consensus       205 ~~~~~~~~~a~~~~~~~~~~~~~~~~~----------~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~---~~~~~~l~~  271 (440)
                      +...|++++|...++++.+.. +.+..          .+..+..++...|++++|...|+++.+..|+   ...+..+..
T Consensus       143 ~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l~~  221 (365)
T 4eqf_A          143 YTNTSHQQDACEALKNWIKQN-PKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQTGLGV  221 (365)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC-HHHHCC-------------------CCHHHHHHHHHHHHHHHHSCSSCCHHHHHHHHH
T ss_pred             HHccccHHHHHHHHHHHHHhC-ccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccCHHHHHHHHH
Confidence            999999999999999988764 22222          2334578889999999999999999877664   678888999


Q ss_pred             HHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHH
Q 039362          272 GLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTE  351 (440)
Q Consensus       272 ~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  351 (440)
                      .+...|++++|+..|+++.+.. +.+..++..+..++...|++++|...|+++.+.. +.+..++..+...|...|++++
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            9999999999999999988764 5567789999999999999999999999998864 2246778889999999999999


Q ss_pred             HHHHHhcC-CCCc-------------cHhHHHHHHHHHHhcCChhHHHHHHHH
Q 039362          352 AYEFICQM-PLEP-------------TASMLGSLLTGCMNHGKLDLAEIVGKK  390 (440)
Q Consensus       352 a~~~~~~~-~~~p-------------~~~~~~~l~~~~~~~g~~~~a~~~~~~  390 (440)
                      |...++++ ...|             +..+|..+..++...|+.+.+..+.++
T Consensus       300 A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  352 (365)
T 4eqf_A          300 AVSNFLTALSLQRKSRNQQQVPHPAISGNIWAALRIALSLMDQPELFQAANLG  352 (365)
T ss_dssp             HHHHHHHHHHHHHCC------------CHHHHHHHHHHHHHTCHHHHHHHHTT
T ss_pred             HHHHHHHHHHhCcccCCCcccchhhhHHHHHHHHHHHHHHcCcHHHHHHHHHh
Confidence            99999887 2222             257788999999999999988877765

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.85  E-value=8.3e-19  Score=161.65  Aligned_cols=367  Identities=11%  Similarity=-0.068  Sum_probs=246.2

Q ss_pred             ChHHHHHHHHHHHccCChhhHHHHHHHHHHc-----C--CCC-CcchHHHHHHHhhchhcHHHHHHHHHHHHHcC-----
Q 039362           27 RIFYWNTVIRGYSKSKNPNKSISLFVKMLRA-----G--VSP-DHLTYPFLAKASGRLAKRELAVAVHAQIAKTG-----   93 (440)
Q Consensus        27 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~--~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-----   93 (440)
                      ....||.|...+...|++++|++.|++..+.     +  ..| ...+|..+..+|...|++++|...++++.+..     
T Consensus        50 ~a~~yn~Lg~~~~~~G~~~eAl~~~~kAl~~~~~~~~~~~~~~~~~~~~nla~~y~~~g~~~~A~~~~~ka~~i~~~~~~  129 (472)
T 4g1t_A           50 KATMCNLLAYLKHLKGQNEAALECLRKAEELIQQEHADQAEIRSLVTWGNYAWVYYHMGRLSDVQIYVDKVKHVCEKFSS  129 (472)
T ss_dssp             CCHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSGGGCTTTTHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCC
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhHhccc
Confidence            4568999999999999999999999987542     1  122 34578899999999999999999999887531     


Q ss_pred             -C-CCcHHHHHHHHHHHHhc--CCHHHHHHHhhCCCC--C-chhhHHHHHHH---HHhcCChHHHHHHHhhCCC---Cch
Q 039362           94 -Y-ESDLFISNSLIHMYGSC--GDIVYAREVFDGMPT--K-MSVSWNSMLDG---YAKCGEMNMARQVFELMPE---RNV  160 (440)
Q Consensus        94 -~-~~~~~~~~~l~~~~~~~--g~~~~a~~~~~~~~~--~-~~~~~~~l~~~---~~~~~~~~~a~~~~~~~~~---~~~  160 (440)
                       . .....++..+..++...  +++++|...|++..+  | ++..+..+..+   +...++.++|++.+++..+   .+.
T Consensus       130 ~~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~~p~~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l~p~~~  209 (472)
T 4g1t_A          130 PYRIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEKKPKNPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIRLNPDNQ  209 (472)
T ss_dssp             SSCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHHCSSCH
T ss_pred             ccchhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhcCCcch
Confidence             1 12345666666666554  469999999998763  3 44455555444   4556788889988887654   345


Q ss_pred             hhHHHHHHHHHh----cCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHH
Q 039362          161 VSWSALIDGYVK----CGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSL  236 (440)
Q Consensus       161 ~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  236 (440)
                      ..+..+...+..    .+++++|.+.+++..... +.+...+..+...+...|++++|...++++.+.. |.+..++..+
T Consensus       210 ~~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l  287 (472)
T 4g1t_A          210 YLKVLLALKLHKMREEGEEEGEGEKLVEEALEKA-PGVTDVLRSAAKFYRRKDEPDKAIELLKKALEYI-PNNAYLHCQI  287 (472)
T ss_dssp             HHHHHHHHHHHHCC------CHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhC-ccHHHHHHHHHHHHHHcCchHHHHHHHHHHHHhC-CChHHHHHHH
Confidence            556665555544    467889999999988764 5567788889999999999999999999999876 6667777777


Q ss_pred             HHHHHhc-------------------CCHHHHHHHHhhhhhcCC-chhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCc
Q 039362          237 IDMYAKC-------------------GAIKEALIVFHGVEKHQS-DVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITP  296 (440)
Q Consensus       237 ~~~~~~~-------------------g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p  296 (440)
                      ..+|...                   +.++.|...+++..+..| +...+..+...+...|++++|++.|++..+....|
T Consensus       288 g~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~kaL~~~~~~  367 (472)
T 4g1t_A          288 GCCYRAKVFQVMNLRENGMYGKRKLLELIGHAVAHLKKADEANDNLFRVCSILASLHALADQYEEAEYYFQKEFSKELTP  367 (472)
T ss_dssp             HHHHHHHHHHHHHC------CHHHHHHHHHHHHHHHHHHHHHCTTTCCCHHHHHHHHHHTTCHHHHHHHHHHHHHSCCCH
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHHhhHHHHHHHHHHHhhcCCchhhhhhhHHHHHHHhccHHHHHHHHHHHHhcCCCC
Confidence            7766432                   346678888888877666 57788999999999999999999999998865433


Q ss_pred             cHh--hHHHHHH-HHHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcC-CCCc-cHhHHHHH
Q 039362          297 DEI--TFLGLLS-ACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQM-PLEP-TASMLGSL  371 (440)
Q Consensus       297 ~~~--~~~~l~~-~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l  371 (440)
                      ...  .+..+.. .....|+.++|+..|.+..+.  .|+.......         ...+.+++++. ...| +..+|..+
T Consensus       368 ~~~~~~~~~~~~~~~~~~~~~~~Ai~~y~kal~i--~~~~~~~~~~---------~~~l~~~~~~~l~~~p~~~~~~~~L  436 (472)
T 4g1t_A          368 VAKQLLHLRYGNFQLYQMKCEDKAIHHFIEGVKI--NQKSREKEKM---------KDKLQKIAKMRLSKNGADSEALHVL  436 (472)
T ss_dssp             HHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHHS--CCCCHHHHHH---------HHHHHHHHHHHHHHCC-CTTHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CcccHHHHHH---------HHHHHHHHHHHHHhCCCCHHHHHHH
Confidence            322  2222222 235789999999999999884  4554332222         22333444443 2234 56889999


Q ss_pred             HHHHHhcCChhHHHHHHHHHHhcCCCCCchHHHHH
Q 039362          372 LTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLS  406 (440)
Q Consensus       372 ~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~  406 (440)
                      ...+...|++++|++.|+++++.+|.+|.+...++
T Consensus       437 G~~~~~~g~~~~A~~~y~kALe~~~~~p~a~~~~G  471 (472)
T 4g1t_A          437 AFLQELNEKMQQADEDSERGLESGSLIPSASSWNG  471 (472)
T ss_dssp             HHHHHHHHHCC------------------------
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhcCCCCCcHhhcCC
Confidence            99999999999999999999999998887766554

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.85  E-value=8.9e-18  Score=156.86  Aligned_cols=383  Identities=15%  Similarity=0.067  Sum_probs=281.3

Q ss_pred             cCChhhHHHHhhhcC---CCChHHHHHHHHHHHccCChhhHHHHHHHHHHcCCCCCcchHHHHHHHh-hchhcHHHHHH-
Q 039362           10 LGNIDYSCKVLSHLS---NPRIFYWNTVIRGYSKSKNPNKSISLFVKMLRAGVSPDHLTYPFLAKAS-GRLAKRELAVA-   84 (440)
Q Consensus        10 ~g~~~~A~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~-~~~~~~~~a~~-   84 (440)
                      .|++++|..+|+++.   |.+...|..++..+.+.|++++|..+|+++...  .|+...|...+... ...|+.+.|.+ 
T Consensus        25 ~~~~~~a~~~~e~al~~~P~~~~~w~~~~~~~~~~~~~~~a~~~~~ral~~--~p~~~lw~~~~~~~~~~~~~~~~a~~~  102 (530)
T 2ooe_A           25 NQPIDKARKTYERLVAQFPSSGRFWKLYIEAEIKAKNYDKVEKLFQRCLMK--VLHIDLWKCYLSYVRETKGKLPSYKEK  102 (530)
T ss_dssp             SSCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTT--CCCHHHHHHHHHHHHHHTTTSTTHHHH
T ss_pred             hCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhc--CCChHHHHHHHHHHHHHccchhhHHHH
Confidence            399999999999875   556778999999999999999999999999885  47777777766533 34466655554 


Q ss_pred             ---HHHHHHHc-CCC-CcHHHHHHHHHHHHh---------cCCHHHHHHHhhCCCC-Cch---hhHHHHHHHH-------
Q 039362           85 ---VHAQIAKT-GYE-SDLFISNSLIHMYGS---------CGDIVYAREVFDGMPT-KMS---VSWNSMLDGY-------  139 (440)
Q Consensus        85 ---~~~~~~~~-~~~-~~~~~~~~l~~~~~~---------~g~~~~a~~~~~~~~~-~~~---~~~~~l~~~~-------  139 (440)
                         +|+...+. |.. ++...|...+....+         .|+++.|..+|++... |..   ..|.......       
T Consensus       103 ~~~~~~~al~~~g~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~~a~~~y~~al~~P~~~~~~~~~~~~~~e~~~~~~~  182 (530)
T 2ooe_A          103 MAQAYDFALDKIGMEIMSYQIWVDYINFLKGVEAVGSYAENQRITAVRRVYQRGCVNPMINIEQLWRDYNKYEEGINIHL  182 (530)
T ss_dssp             HHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHSCCCSSTTHHHHHHHHHHHHHHHTTSCCTTHHHHHHHHHHHHHHHCHHH
T ss_pred             HHHHHHHHHHHCCCCcccHHHHHHHHHHHhcCCCcccHHHHhHHHHHHHHHHHHHhchhhhHHHHHHHHHHHHHhhchhH
Confidence               77777654 433 356677777776654         6899999999988765 221   2333222210       


Q ss_pred             ------HhcCChHHHHHHHhh-------CC------CCc--------hhhHHHHHHHHHhc----CCH----HHHHHHHH
Q 039362          140 ------AKCGEMNMARQVFEL-------MP------ERN--------VVSWSALIDGYVKC----GDY----KEALVIFE  184 (440)
Q Consensus       140 ------~~~~~~~~a~~~~~~-------~~------~~~--------~~~~~~l~~~~~~~----~~~----~~a~~~~~  184 (440)
                            .+.++++.|..++..       +.      .|+        ...|...+......    ++.    +++..+|+
T Consensus       183 ~~~~l~~~~~~~~~A~~~~~~~~~~~~~l~~~~~~~~p~~~~~~~~~~~~w~~~~~~e~~~~~~~~~~~~~~~~a~~~y~  262 (530)
T 2ooe_A          183 AKKMIEDRSRDYMNARRVAKEYETVMKGLDRNAPSVPPQNTPQEAQQVDMWKKYIQWEKSNPLRTEDQTLITKRVMFAYE  262 (530)
T ss_dssp             HHHHHHTTHHHHHHHHHHHHHHHHHHHHCCSSSCCCCCC--CCHHHHHHHHHHHHHHHHHCSSCCSCSHHHHHHHHHHHH
T ss_pred             HHHHHHHhhHHHHHHHHHHHHHHHHHHHhccccccCCCCCChhHHHHHHHHHHHHHHHHcCCccCCcchhHHHHHHHHHH
Confidence                  134567777776654       11      111        23455554333222    222    47788999


Q ss_pred             HHHhcCCCCCHHHHHHHHHHHHh-------cCChH-------HHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHH
Q 039362          185 EMRDVGSKANEVTLVSVLCACAH-------LGALD-------QGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEAL  250 (440)
Q Consensus       185 ~~~~~~~~~~~~~~~~l~~~~~~-------~~~~~-------~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  250 (440)
                      +..... +.+...+...+..+.+       .|+++       +|..++++..+.-.|.+...+..++..+.+.|++++|.
T Consensus       263 ~al~~~-p~~~~~w~~~~~~~~~~~~~~~~~g~~~~a~~~~~~A~~~~~~Al~~~~p~~~~l~~~~~~~~~~~g~~~~A~  341 (530)
T 2ooe_A          263 QCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVH  341 (530)
T ss_dssp             HHHHHH-TTCHHHHHHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHhC-CCCHHHHHHHHHHHHHhchhhhhccchhhhhhhhHHHHHHHHHHHHHhCcccHHHHHHHHHHHHhcCCHHHHH
Confidence            987763 4567777777777765       78987       89999999987333667889999999999999999999


Q ss_pred             HHHhhhhhcCCch--hhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHH-HHcCCChHHHHHHHHHHhhc
Q 039362          251 IVFHGVEKHQSDV--LIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSA-CAHGGLVMEAWYFFKSLGKR  327 (440)
Q Consensus       251 ~~~~~~~~~~~~~--~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~-~~~~~~~~~a~~~~~~~~~~  327 (440)
                      .+|+++.+..|+.  ..|..++..+.+.|++++|.++|++..+.. +.+...+...... +...|+.++|..+|++..+.
T Consensus       342 ~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~~~-~~~~~~~~~~a~~~~~~~~~~~~A~~~~e~al~~  420 (530)
T 2ooe_A          342 SIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA-RTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKK  420 (530)
T ss_dssp             HHHHHHHHSSSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCT-TCCTHHHHHHHHHHHHHTCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHhCccccCchHHHHHHHHHHHHhcCHHHHHHHHHHHHhcc-CCchHHHHHHHHHHHHHcCChhHHHHHHHHHHHH
Confidence            9999999887753  478999999999999999999999998753 2222333322222 33589999999999999886


Q ss_pred             CCCCCcchHHHHHHHHHhcCCHHHHHHHHhcC-C---CCcc--HhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCC
Q 039362          328 GMVPKSEHYACMVDALSRAGQVTEAYEFICQM-P---LEPT--ASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPD  397 (440)
Q Consensus       328 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~---~~p~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  397 (440)
                      . +.+...|..++..+.+.|+.++|..+|++. .   ..|+  ...|...+......|+.+.+..+.+++.+..|.
T Consensus       421 ~-p~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~~~~~~~~~~~lw~~~~~~e~~~G~~~~~~~~~~r~~~~~p~  495 (530)
T 2ooe_A          421 Y-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRFTAFRE  495 (530)
T ss_dssp             H-TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHSCCSCGGGCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHTHH
T ss_pred             C-CCCHHHHHHHHHHHHhCCCHhhHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCch
Confidence            3 235678889999999999999999999997 2   2333  347888888888999999999999999998874

>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=99.85  E-value=4.9e-20  Score=160.70  Aligned_cols=350  Identities=10%  Similarity=0.012  Sum_probs=167.3

Q ss_pred             ccCChhhHHHHHHHHHHcCCCCCcchHHHHHHHhhchhcHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhcCCHHHHHH
Q 039362           40 KSKNPNKSISLFVKMLRAGVSPDHLTYPFLAKASGRLAKRELAVAVHAQIAKTGYESDLFISNSLIHMYGSCGDIVYARE  119 (440)
Q Consensus        40 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~  119 (440)
                      +.|+.++|.+.++++.      ++.+|..++.++.+.|++++|++.|.+.      +|..+|..++..+...|++++|+.
T Consensus        15 ~~~~ld~A~~fae~~~------~~~vWs~La~A~l~~g~~~eAIdsfika------~D~~~y~~V~~~ae~~g~~EeAi~   82 (449)
T 1b89_A           15 HIGNLDRAYEFAERCN------EPAVWSQLAKAQLQKGMVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVK   82 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HccCHHHHHHHHHhCC------ChHHHHHHHHHHHHcCCHHHHHHHHHcC------CCHHHHHHHHHHHHhCCCHHHHHH
Confidence            5678999999999883      3358999999999999999999999652      577789999999999999999999


Q ss_pred             HhhCCCC--CchhhHHHHHHHHHhcCChHHHHHHHhhCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHH
Q 039362          120 VFDGMPT--KMSVSWNSMLDGYAKCGEMNMARQVFELMPERNVVSWSALIDGYVKCGDYKEALVIFEEMRDVGSKANEVT  197 (440)
Q Consensus       120 ~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  197 (440)
                      .++...+  +++.+.+.++.+|.+.|+++++.++++.   |+..+|+.+...|...|++++|...|..+         ..
T Consensus        83 yl~~ark~~~~~~i~~~Li~~Y~Klg~l~e~e~f~~~---pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a---------~n  150 (449)
T 1b89_A           83 YLQMARKKARESYVETELIFALAKTNRLAELEEFING---PNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SN  150 (449)
T ss_dssp             --------------------------CHHHHTTTTTC---C----------------CTTTHHHHHHHT---------TC
T ss_pred             HHHHHHHhCccchhHHHHHHHHHHhCCHHHHHHHHcC---CcHHHHHHHHHHHHHcCCHHHHHHHHHHh---------hh
Confidence            8877764  3557788999999999999999988863   77789999999999999999999999976         47


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCCchhhHHHHHHHHHhcC
Q 039362          198 LVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQSDVLIWNAMIGGLAMHG  277 (440)
Q Consensus       198 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~  277 (440)
                      |..++.++.+.|++++|.+.+.++      .++.+|..++.+|...|+++.|......+. ..|+.  ...++..|.+.|
T Consensus       151 ~~~LA~~L~~Lg~yq~AVea~~KA------~~~~~Wk~v~~aCv~~~ef~lA~~~~l~L~-~~ad~--l~~lv~~Yek~G  221 (449)
T 1b89_A          151 FGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCGLHIV-VHADE--LEELINYYQDRG  221 (449)
T ss_dssp             HHHHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHHHHHHHHTTCHHHHHHTTTTTT-TCHHH--HHHHHHHHHHTT
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHc------CCchhHHHHHHHHHHcCcHHHHHHHHHHHH-hCHhh--HHHHHHHHHHCC
Confidence            889999999999999999999988      368899999999999999999988777654 24433  446889999999


Q ss_pred             ChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHhhc-CCCC------CcchHHHHHHHHHhcCCHH
Q 039362          278 FVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKR-GMVP------KSEHYACMVDALSRAGQVT  350 (440)
Q Consensus       278 ~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~------~~~~~~~l~~~~~~~~~~~  350 (440)
                      ++++|..+++...... +.....|+.+.-++++- ++++..+.++..... +++|      +...|..++..|...++++
T Consensus       222 ~~eEai~lLe~aL~le-~ah~~~ftel~il~~ky-~p~k~~ehl~~~~~~ini~k~~~~~~~~~~w~e~~~ly~~~~e~d  299 (449)
T 1b89_A          222 YFEELITMLEAALGLE-RAHMGMFTELAILYSKF-KPQKMREHLELFWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYD  299 (449)
T ss_dssp             CHHHHHHHHHHHTTST-TCCHHHHHHHHHHHHTT-CHHHHHHHHHHHSTTSCHHHHHHHHHTTTCHHHHHHHHHHTTCHH
T ss_pred             CHHHHHHHHHHHhCCc-HHHHHHHHHHHHHHHhc-CHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHHHHhhchHH
Confidence            9999999999987554 44456777777777653 344444444433332 3433      5678999999999999999


Q ss_pred             HHHHHHhcC-CC-------------CccHhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCCchHHHHHHHHHhccChH
Q 039362          351 EAYEFICQM-PL-------------EPTASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKRWD  416 (440)
Q Consensus       351 ~a~~~~~~~-~~-------------~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  416 (440)
                      .|...+-+- ..             ..+..+|...+..|.  +....++.-+...+.  |.  .-....+..+.+.|...
T Consensus       300 ~A~~tm~~h~~~a~~~~~f~~~~~kv~n~elyYkai~fyl--~~~p~~l~~ll~~l~--~~--ld~~r~v~~~~~~~~l~  373 (449)
T 1b89_A          300 NAIITMMNHPTDAWKEGQFKDIITKVANVELYYRAIQFYL--EFKPLLLNDLLMVLS--PR--LDHTRAVNYFSKVKQLP  373 (449)
T ss_dssp             HHHHHHHHSTTTTCCHHHHHHHHHHCSSTHHHHHHHHHHH--HHCGGGHHHHHHHHG--GG--CCHHHHHHHHHHTTCTT
T ss_pred             HHHHHHHhCChhhhhhHHHHHHHhchhHHHHHHHHHHHHH--hcCHHHHHHHHHHHH--hc--cCcHHHHHHHHHcCCcH
Confidence            998876555 22             123445555555554  222222322222221  11  01234455556666666


Q ss_pred             HHHHHHHHHHhcCC
Q 039362          417 EARTTREAMETRGV  430 (440)
Q Consensus       417 ~A~~~~~~~~~~~~  430 (440)
                      -+..+++.+...+.
T Consensus       374 l~~~yl~~v~~~n~  387 (449)
T 1b89_A          374 LVKPYLRSVQNHNN  387 (449)
T ss_dssp             TTHHHHHHHHTTCC
T ss_pred             HHHHHHHHHHHhhH
Confidence            66666666655543

>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=99.85  E-value=1.7e-17  Score=161.32  Aligned_cols=363  Identities=13%  Similarity=0.112  Sum_probs=238.7

Q ss_pred             CChhhHHHHhhhcC-CC-----ChHHHHHHHHHHHccCChhhHHHHHHHHHHcCCCCCcchHHHHHHHhhchhcHHHHHH
Q 039362           11 GNIDYSCKVLSHLS-NP-----RIFYWNTVIRGYSKSKNPNKSISLFVKMLRAGVSPDHLTYPFLAKASGRLAKRELAVA   84 (440)
Q Consensus        11 g~~~~A~~~~~~~~-~~-----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~   84 (440)
                      |.+.+|.++++++. .|     +....+.++....+. +..+..+..++....       ....+...+...|.+++|..
T Consensus       999 glp~EaieLLEKivl~~s~fs~n~~LqnlLi~tAIka-D~~Rv~eyI~kLd~~-------d~~eIA~Iai~lglyEEAf~ 1070 (1630)
T 1xi4_A          999 DLPNELIELLEKIVLDNSVFSEHRNLQNLLILTAIKA-DRTRVMEYINRLDNY-------DAPDIANIAISNELFEEAFA 1070 (1630)
T ss_pred             CCHHHHHHHHHHHHcCCCcccccHHHHHHHHHHHHHh-ChhhHHHHHHHhhhc-------cHHHHHHHHHhCCCHHHHHH
Confidence            66666666666554 11     223444455544444 334444444433311       12335566667777777777


Q ss_pred             HHHHHHHcCCCCcHHHHHHHHHHHHhcCCHHHHHHHhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHhhCCCCchhhHH
Q 039362           85 VHAQIAKTGYESDLFISNSLIHMYGSCGDIVYAREVFDGMPTKMSVSWNSMLDGYAKCGEMNMARQVFELMPERNVVSWS  164 (440)
Q Consensus        85 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  164 (440)
                      +|++..     ......+.++.   ..+++++|.++.+++.  ++.+|..+..++...|++++|++.|.+.  .|...|.
T Consensus      1071 IYkKa~-----~~~~A~~VLie---~i~nldrAiE~Aervn--~p~vWsqLAKAql~~G~~kEAIdsYiKA--dD~say~ 1138 (1630)
T 1xi4_A         1071 IFRKFD-----VNTSAVQVLIE---HIGNLDRAYEFAERCN--EPAVWSQLAKAQLQKGMVKEAIDSYIKA--DDPSSYM 1138 (1630)
T ss_pred             HHHHcC-----CHHHHHHHHHH---HHhhHHHHHHHHHhcC--CHHHHHHHHHHHHhCCCHHHHHHHHHhc--CChHHHH
Confidence            777741     11222222322   5677777777777663  3556778888888888888888888665  5666777


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcC
Q 039362          165 ALIDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCG  244 (440)
Q Consensus       165 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  244 (440)
                      .++.++.+.|++++|.+.|....+..  ++....+.++.+|++.+++++...+.    +   .++...+..+...|...|
T Consensus      1139 eVa~~~~~lGkyEEAIeyL~mArk~~--~e~~Idt~LafaYAKl~rleele~fI----~---~~n~ad~~~iGd~le~eg 1209 (1630)
T 1xi4_A         1139 EVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIFALAKTNRLAELEEFI----N---GPNNAHIQQVGDRCYDEK 1209 (1630)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhhc--ccccccHHHHHHHHhhcCHHHHHHHH----h---CCCHHHHHHHHHHHHhcC
Confidence            78888888888888888887766553  33333334777777777777544332    1   344556667888888888


Q ss_pred             CHHHHHHHHhhhhhcCCchhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHHH
Q 039362          245 AIKEALIVFHGVEKHQSDVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSL  324 (440)
Q Consensus       245 ~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~  324 (440)
                      ++++|..+|..+       ..|..+...+.+.|++++|++.+++.      .+..+|..+..+|...|++..|......+
T Consensus      1210 ~YeeA~~~Y~kA-------~ny~rLA~tLvkLge~q~AIEaarKA------~n~~aWkev~~acve~~Ef~LA~~cgl~I 1276 (1630)
T 1xi4_A         1210 MYDAAKLLYNNV-------SNFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCGLHI 1276 (1630)
T ss_pred             CHHHHHHHHHhh-------hHHHHHHHHHHHhCCHHHHHHHHHHh------CCHHHHHHHHHHHhhhhHHHHHHHHHHhh
Confidence            888888888775       37778888888888888888888765      34567777777888888877777655432


Q ss_pred             hhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcC-CCCccH-hHHHHHHHHHHh--cCChhHHHHHHHHHHhcCC----
Q 039362          325 GKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQM-PLEPTA-SMLGSLLTGCMN--HGKLDLAEIVGKKLVELQP----  396 (440)
Q Consensus       325 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p~~-~~~~~l~~~~~~--~g~~~~a~~~~~~~~~~~~----  396 (440)
                           ..+...+..++..|.+.|.+++|+.+++.. ++.|.. ..|..+...+.+  -++..++.++|..-....|    
T Consensus      1277 -----iv~~deLeeli~yYe~~G~feEAI~LlE~aL~LeraH~gmftELaiLyaKy~peklmEhlk~f~~rini~k~~r~ 1351 (1630)
T 1xi4_A         1277 -----VVHADELEELINYYQDRGYFEELITMLEAALGLERAHMGMFTELAILYSKFKPQKMREHLELFWSRVNIPKVLRA 1351 (1630)
T ss_pred             -----hcCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccChhHhHHHHHHHHHHHhCCHHHHHHHHHHHHHhcccchHhHH
Confidence                 235566778888888999999999999776 555533 556666666654  4456666666665554444    


Q ss_pred             -CCCchHHHHHHHHHhccChHHHHH
Q 039362          397 -DHDGRYVGLSNVYAIFKRWDEART  420 (440)
Q Consensus       397 -~~~~~~~~l~~~~~~~g~~~~A~~  420 (440)
                       .+...|..+...|.+.|+++.|..
T Consensus      1352 ~e~~~lW~elv~LY~~~~e~dnA~~ 1376 (1630)
T 1xi4_A         1352 AEQAHLWAELVFLYDKYEEYDNAII 1376 (1630)
T ss_pred             HHHHHHHHHHHHHHHhcccHHHHHH
Confidence             456678888888999999998874

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.85  E-value=4.6e-18  Score=145.21  Aligned_cols=270  Identities=13%  Similarity=0.028  Sum_probs=204.9

Q ss_pred             HHHhcCChHHHHHHHhhCCCCc----hhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHH
Q 039362          138 GYAKCGEMNMARQVFELMPERN----VVSWSALIDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQ  213 (440)
Q Consensus       138 ~~~~~~~~~~a~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  213 (440)
                      -....|++..|+..++.....+    ......+.++|...|+++.|+..++.   . -+|+..++..+...+...++.++
T Consensus         8 ~~~~~g~y~~ai~~~~~~~~~~p~~~~e~~~~l~r~yi~~g~~~~al~~~~~---~-~~~~~~a~~~la~~~~~~~~~~~   83 (291)
T 3mkr_A            8 NAFYIGSYQQCINEAQRVKPSSPERDVERDVFLYRAYLAQRKYGVVLDEIKP---S-SAPELQAVRMFAEYLASHSRRDA   83 (291)
T ss_dssp             HHHHTTCHHHHHHHHHHSCCCSHHHHHHHHHHHHHHHHHTTCHHHHHHHSCT---T-SCHHHHHHHHHHHHHHCSTTHHH
T ss_pred             HHHHHHHHHHHHHHHHhcccCCchhhHHHHHHHHHHHHHCCCHHHHHHHhcc---c-CChhHHHHHHHHHHHcCCCcHHH
Confidence            3445677777777777655422    23445567888889999888876654   1 35667778888888888889999


Q ss_pred             HHHHHHHHHHcCC-CCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCCchhhHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 039362          214 GRMMLRYMIDKGL-SLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQSDVLIWNAMIGGLAMHGFVKESLELFTEMQIV  292 (440)
Q Consensus       214 a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~  292 (440)
                      |.+.++++...+. |.+...+..+..++...|++++|+..+++    ..+...+..++..+.+.|++++|.+.|+++.+.
T Consensus        84 A~~~l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~----~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~  159 (291)
T 3mkr_A           84 IVAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ----GDSLECMAMTVQILLKLDRLDLARKELKKMQDQ  159 (291)
T ss_dssp             HHHHHHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT----CCSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC----CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhh
Confidence            9999998887763 44566777788889999999999999987    456778888889999999999999999999876


Q ss_pred             CCCccHhhH---HHHHHHHHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcC-CCCc-cHhH
Q 039362          293 GITPDEITF---LGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQM-PLEP-TASM  367 (440)
Q Consensus       293 ~~~p~~~~~---~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~  367 (440)
                      .  |+....   ...+..+...|++++|..+|+++.+.. +.+...++.+..++.+.|++++|.+.++++ ...| +..+
T Consensus       160 ~--p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~~-p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~~p~~~~~  236 (291)
T 3mkr_A          160 D--EDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADKC-SPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKDSGHPET  236 (291)
T ss_dssp             C--TTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHS-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHH
T ss_pred             C--cCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHH
Confidence            4  543211   123344445689999999999999873 457778889999999999999999999997 4455 5678


Q ss_pred             HHHHHHHHHhcCChhH-HHHHHHHHHhcCCCCCchHHHHHHHHHhccChHHHHHHH
Q 039362          368 LGSLLTGCMNHGKLDL-AEIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEARTTR  422 (440)
Q Consensus       368 ~~~l~~~~~~~g~~~~-a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  422 (440)
                      +..++..+...|+.++ +.++++++++.+|.++.+.    ....+.+.++++..-|
T Consensus       237 l~~l~~~~~~~g~~~eaa~~~~~~~~~~~P~~~~~~----d~~~~~~~fd~~~~~~  288 (291)
T 3mkr_A          237 LINLVVLSQHLGKPPEVTNRYLSQLKDAHRSHPFIK----EYRAKENDFDRLVLQY  288 (291)
T ss_dssp             HHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTCHHHH----HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHHHHhCCCChHHH----HHHHHHHHHHHHHHHc
Confidence            8899999999999876 6789999999999997543    3445555555555433

>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=99.83  E-value=1.3e-16  Score=155.24  Aligned_cols=349  Identities=15%  Similarity=0.117  Sum_probs=270.9

Q ss_pred             HHHHHHHHccCChhhHHHHHHHHHHcCC--CCCcchHHHHHHHhhchhcHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHH
Q 039362           32 NTVIRGYSKSKNPNKSISLFVKMLRAGV--SPDHLTYPFLAKASGRLAKRELAVAVHAQIAKTGYESDLFISNSLIHMYG  109 (440)
Q Consensus        32 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  109 (440)
                      ...++.|...|.+.+|++++++..-.+-  .-+...-+.++.+..+. +..+..++.+..-..    +   ...+...+.
T Consensus       989 s~~vKaf~~aglp~EaieLLEKivl~~s~fs~n~~LqnlLi~tAIka-D~~Rv~eyI~kLd~~----d---~~eIA~Iai 1060 (1630)
T 1xi4_A          989 SVTVKAFMTADLPNELIELLEKIVLDNSVFSEHRNLQNLLILTAIKA-DRTRVMEYINRLDNY----D---APDIANIAI 1060 (1630)
T ss_pred             HHHHHHHHhCCCHHHHHHHHHHHHcCCCcccccHHHHHHHHHHHHHh-ChhhHHHHHHHhhhc----c---HHHHHHHHH
Confidence            4456778889999999999999874321  11233445566555555 556666666655421    1   334777888


Q ss_pred             hcCCHHHHHHHhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHhhCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 039362          110 SCGDIVYAREVFDGMPTKMSVSWNSMLDGYAKCGEMNMARQVFELMPERNVVSWSALIDGYVKCGDYKEALVIFEEMRDV  189 (440)
Q Consensus       110 ~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  189 (440)
                      ..|.+++|..+|++... .....+.+   +...+++++|.++.+++.  +..+|..+..++...|++++|++.|.+.   
T Consensus      1061 ~lglyEEAf~IYkKa~~-~~~A~~VL---ie~i~nldrAiE~Aervn--~p~vWsqLAKAql~~G~~kEAIdsYiKA--- 1131 (1630)
T 1xi4_A         1061 SNELFEEAFAIFRKFDV-NTSAVQVL---IEHIGNLDRAYEFAERCN--EPAVWSQLAKAQLQKGMVKEAIDSYIKA--- 1131 (1630)
T ss_pred             hCCCHHHHHHHHHHcCC-HHHHHHHH---HHHHhhHHHHHHHHHhcC--CHHHHHHHHHHHHhCCCHHHHHHHHHhc---
Confidence            89999999999999752 22222223   227789999999999884  5778889999999999999999999663   


Q ss_pred             CCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCCchhhHHHH
Q 039362          190 GSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQSDVLIWNAM  269 (440)
Q Consensus       190 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l  269 (440)
                         -|...|..++.++.+.|++++|.+.+....+..  +++.....++.+|++.+++++...+.   .  .++...|..+
T Consensus      1132 ---dD~say~eVa~~~~~lGkyEEAIeyL~mArk~~--~e~~Idt~LafaYAKl~rleele~fI---~--~~n~ad~~~i 1201 (1630)
T 1xi4_A         1132 ---DDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIFALAKTNRLAELEEFI---N--GPNNAHIQQV 1201 (1630)
T ss_pred             ---CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhc--ccccccHHHHHHHHhhcCHHHHHHHH---h--CCCHHHHHHH
Confidence               466788889999999999999999999887765  33334446999999999988644443   2  5666777789


Q ss_pred             HHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCH
Q 039362          270 IGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQV  349 (440)
Q Consensus       270 ~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  349 (440)
                      ...|...|++++|..+|...         ..|..+...+.+.|++++|.+.+++.      .+..+|..+..+|...|++
T Consensus      1202 Gd~le~eg~YeeA~~~Y~kA---------~ny~rLA~tLvkLge~q~AIEaarKA------~n~~aWkev~~acve~~Ef 1266 (1630)
T 1xi4_A         1202 GDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEF 1266 (1630)
T ss_pred             HHHHHhcCCHHHHHHHHHhh---------hHHHHHHHHHHHhCCHHHHHHHHHHh------CCHHHHHHHHHHHhhhhHH
Confidence            99999999999999999985         37899999999999999999999877      2557898899999999999


Q ss_pred             HHHHHHHhcCCCCccHhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCCchHHHHHHHHHhc--cChHHHHHHHHH
Q 039362          350 TEAYEFICQMPLEPTASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIF--KRWDEARTTREA  424 (440)
Q Consensus       350 ~~a~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~--g~~~~A~~~~~~  424 (440)
                      ..|......  +..++..+..++..|.+.|.+++|+.+++..+.++|.+...|+-++.+|.+-  ++..++.++|.+
T Consensus      1267 ~LA~~cgl~--Iiv~~deLeeli~yYe~~G~feEAI~LlE~aL~LeraH~gmftELaiLyaKy~peklmEhlk~f~~ 1341 (1630)
T 1xi4_A         1267 RLAQMCGLH--IVVHADELEELINYYQDRGYFEELITMLEAALGLERAHMGMFTELAILYSKFKPQKMREHLELFWS 1341 (1630)
T ss_pred             HHHHHHHHh--hhcCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccChhHhHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            999988775  3445666778999999999999999999999999999988998888888764  566777777753

>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=99.83  E-value=2.4e-18  Score=150.46  Aligned_cols=153  Identities=12%  Similarity=0.023  Sum_probs=107.7

Q ss_pred             HHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCC-chhhHHHHHHHHHhcCChHHHH
Q 039362          205 CAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQS-DVLIWNAMIGGLAMHGFVKESL  283 (440)
Q Consensus       205 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~  283 (440)
                      +...|++++|...++++.+.. +.+...+..+..+|...|++++|...++++.+..| +...+..+...+...|++++|.
T Consensus       148 ~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~  226 (327)
T 3cv0_A          148 FAAPNEYRECRTLLHAALEMN-PNDAQLHASLGVLYNLSNNYDSAAANLRRAVELRPDDAQLWNKLGATLANGNRPQEAL  226 (327)
T ss_dssp             TTSHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHcccHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHH
Confidence            556677777777777777665 45666777777777777777777777777766655 4566777777777788888888


Q ss_pred             HHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHhhcCCCC-----------CcchHHHHHHHHHhcCCHHHH
Q 039362          284 ELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVP-----------KSEHYACMVDALSRAGQVTEA  352 (440)
Q Consensus       284 ~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-----------~~~~~~~l~~~~~~~~~~~~a  352 (440)
                      ..++++.+.. +.+..++..+...+...|++++|...++++.+.....           +...+..+..++.+.|++++|
T Consensus       227 ~~~~~a~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  305 (327)
T 3cv0_A          227 DAYNRALDIN-PGYVRVMYNMAVSYSNMSQYDLAAKQLVRAIYMQVGGTTPTGEASREATRSMWDFFRMLLNVMNRPDLV  305 (327)
T ss_dssp             HHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTSCC-----CCTHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHcC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCccccccccchhhcCHHHHHHHHHHHHhcCCHHHH
Confidence            8887777653 3445667777777777888888888887776653111           245566677777777777777


Q ss_pred             HHHHhcC
Q 039362          353 YEFICQM  359 (440)
Q Consensus       353 ~~~~~~~  359 (440)
                      ..++++.
T Consensus       306 ~~~~~~~  312 (327)
T 3cv0_A          306 ELTYAQN  312 (327)
T ss_dssp             HHHTTCC
T ss_pred             HHHHHHH
Confidence            7777654

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.82  E-value=1.1e-17  Score=142.76  Aligned_cols=224  Identities=10%  Similarity=0.055  Sum_probs=121.0

Q ss_pred             HHHHHHhcCChHHHHHHHhhCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC-CHHHHHHHHHHHHhcCChHH
Q 039362          135 MLDGYAKCGEMNMARQVFELMPERNVVSWSALIDGYVKCGDYKEALVIFEEMRDVGSKA-NEVTLVSVLCACAHLGALDQ  213 (440)
Q Consensus       135 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~  213 (440)
                      +.++|...|+++.|+..++....|+..++..+...+...++.++|++.++++...+..| +...+..+...+...|++++
T Consensus        40 l~r~yi~~g~~~~al~~~~~~~~~~~~a~~~la~~~~~~~~~~~A~~~l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~  119 (291)
T 3mkr_A           40 LYRAYLAQRKYGVVLDEIKPSSAPELQAVRMFAEYLASHSRRDAIVAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDA  119 (291)
T ss_dssp             HHHHHHHTTCHHHHHHHSCTTSCHHHHHHHHHHHHHHCSTTHHHHHHHHHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHCCCHHHHHHHhcccCChhHHHHHHHHHHHcCCCcHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHCCCHHH
Confidence            34444445555555444444323444455555556666666666666666665544333 33334444455566666666


Q ss_pred             HHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCCchhhH---HHHHHHHHhcCChHHHHHHHHHHH
Q 039362          214 GRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQSDVLIW---NAMIGGLAMHGFVKESLELFTEMQ  290 (440)
Q Consensus       214 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~---~~l~~~~~~~~~~~~a~~~~~~m~  290 (440)
                      |...+++      +.+...+..++.+|.+.|++++|...|+++.+..|+....   ...+..+...|++++|..+|+++.
T Consensus       120 Al~~l~~------~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l  193 (291)
T 3mkr_A          120 ALRTLHQ------GDSLECMAMTVQILLKLDRLDLARKELKKMQDQDEDATLTQLATAWVSLAAGGEKLQDAYYIFQEMA  193 (291)
T ss_dssp             HHHHHTT------CCSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHH
T ss_pred             HHHHHhC------CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCcCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHH
Confidence            6666554      3445555666666666666666666666665555543211   112222333466666666666666


Q ss_pred             HcCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHH-HHHHHhcC-CCCccHh
Q 039362          291 IVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTE-AYEFICQM-PLEPTAS  366 (440)
Q Consensus       291 ~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~-a~~~~~~~-~~~p~~~  366 (440)
                      +.. +.+...++.+..++.+.|++++|...|+++.+.. +-+..++..++..+...|+.++ +.++++++ .+.|+..
T Consensus       194 ~~~-p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~~-p~~~~~l~~l~~~~~~~g~~~eaa~~~~~~~~~~~P~~~  269 (291)
T 3mkr_A          194 DKC-SPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKD-SGHPETLINLVVLSQHLGKPPEVTNRYLSQLKDAHRSHP  269 (291)
T ss_dssp             HHS-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTCH
T ss_pred             HhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhCCCCh
Confidence            552 4455556666666666666666666666666543 1244555666666666666654 34555555 3444443

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.79  E-value=1.1e-17  Score=136.64  Aligned_cols=198  Identities=17%  Similarity=0.040  Sum_probs=138.3

Q ss_pred             CCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCC-chhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHH
Q 039362          227 SLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQS-DVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLL  305 (440)
Q Consensus       227 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~  305 (440)
                      |++...+..+...+...|++++|...|+++.+..| +...+..+...+.+.|++++|+..+++..+.. +.+...+..+.
T Consensus         2 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg   80 (217)
T 2pl2_A            2 QTAEQNPLRLGVQLYALGRYDAALTLFERALKENPQDPEALYWLARTQLKLGLVNPALENGKTLVART-PRYLGGYMVLS   80 (217)
T ss_dssp             --CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHH
Confidence            44555666666666666777777777766665555 35566666666677777777777777766653 33445666666


Q ss_pred             HHHHcC-----------CChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcC-CCCccHhHHHHHHH
Q 039362          306 SACAHG-----------GLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQM-PLEPTASMLGSLLT  373 (440)
Q Consensus       306 ~~~~~~-----------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p~~~~~~~l~~  373 (440)
                      ..+...           |++++|+..+++..+... -+...+..+...+...|++++|+..|++. .+..+...+..+..
T Consensus        81 ~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~P-~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~la~  159 (217)
T 2pl2_A           81 EAYVALYRQAEDRERGKGYLEQALSVLKDAERVNP-RYAPLHLQRGLVYALLGERDKAEASLKQALALEDTPEIRSALAE  159 (217)
T ss_dssp             HHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCHHHHHHHHH
T ss_pred             HHHHHhhhhhhhhcccccCHHHHHHHHHHHHHhCc-ccHHHHHHHHHHHHHcCChHHHHHHHHHHHhcccchHHHHHHHH
Confidence            666666           889999999998888641 24567788888899999999999999887 22267788889999


Q ss_pred             HHHhcCChhHHHHHHHHHHhcCCCCCchHHHHHHHHHhccChHHHHHHHHHHH
Q 039362          374 GCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEARTTREAME  426 (440)
Q Consensus       374 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  426 (440)
                      ++...|++++|+..++++++.+|.++..+..++.++...|++++|.+.+++..
T Consensus       160 ~~~~~g~~~~A~~~~~~al~~~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~~  212 (217)
T 2pl2_A          160 LYLSMGRLDEALAQYAKALEQAPKDLDLRVRYASALLLKGKAEEAARAAALEH  212 (217)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHTC---------------
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHccCHHHHHHHHHHHh
Confidence            99999999999999999999999999999999999999999999999987654

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.79  E-value=2.3e-17  Score=138.89  Aligned_cols=225  Identities=13%  Similarity=0.057  Sum_probs=118.8

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCC--Cc----hhhHH
Q 039362          161 VSWSALIDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLS--LT----LPLQT  234 (440)
Q Consensus       161 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~----~~~~~  234 (440)
                      ..+..+...+...|++++|...|++..+..  .+...+..+..++...|++++|...++.+.+....  ++    ..++.
T Consensus         6 ~~~~~~g~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~   83 (258)
T 3uq3_A            6 DKEKAEGNKFYKARQFDEAIEHYNKAWELH--KDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISKSFA   83 (258)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--CCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHhh--ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHHHHH
Confidence            345556666666666666666666666554  45556666666666666666666666665543211  01    34555


Q ss_pred             HHHHHHHhcCCHHHHHHHHhhhhhcCCchhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCCh
Q 039362          235 SLIDMYAKCGAIKEALIVFHGVEKHQSDVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLV  314 (440)
Q Consensus       235 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~  314 (440)
                      .+..+|...|++++|...|+++....|+.       ..+...|++++|...++++.... +.+...+..+...+...|++
T Consensus        84 ~l~~~~~~~~~~~~A~~~~~~a~~~~~~~-------~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~  155 (258)
T 3uq3_A           84 RIGNAYHKLGDLKKTIEYYQKSLTEHRTA-------DILTKLRNAEKELKKAEAEAYVN-PEKAEEARLEGKEYFTKSDW  155 (258)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCCCH-------HHHHHHHHHHHHHHHHHHHHHCC-HHHHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHcccHHHHHHHHHHHHhcCchh-------HHHHHHhHHHHHHHHHHHHHHcC-cchHHHHHHHHHHHHHhcCH
Confidence            55555555566666665555555444442       22333444555555555554432 22233444444445555555


Q ss_pred             HHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcCCCCccHhHHHHHHHHHHhcCChhHHHHHHHHHHhc
Q 039362          315 MEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQMPLEPTASMLGSLLTGCMNHGKLDLAEIVGKKLVEL  394 (440)
Q Consensus       315 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  394 (440)
                      ++|...++++.+..                                 +.+..++..++..+...|++++|+..++++++.
T Consensus       156 ~~A~~~~~~a~~~~---------------------------------~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~  202 (258)
T 3uq3_A          156 PNAVKAYTEMIKRA---------------------------------PEDARGYSNRAAALAKLMSFPEAIADCNKAIEK  202 (258)
T ss_dssp             HHHHHHHHHHHHHC---------------------------------TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcC---------------------------------cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHh
Confidence            55555555554432                                 112344445555555555555555555555555


Q ss_pred             CCCCCchHHHHHHHHHhccChHHHHHHHHHHHhc
Q 039362          395 QPDHDGRYVGLSNVYAIFKRWDEARTTREAMETR  428 (440)
Q Consensus       395 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  428 (440)
                      .|.++..+..++.++...|++++|.+.+++..+.
T Consensus       203 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~  236 (258)
T 3uq3_A          203 DPNFVRAYIRKATAQIAVKEYASALETLDAARTK  236 (258)
T ss_dssp             CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHh
Confidence            5555555555555555555555555555555443

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.78  E-value=3.7e-17  Score=137.65  Aligned_cols=189  Identities=11%  Similarity=0.081  Sum_probs=121.7

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHhhhhhcCCchhhHHHHHHHHHhcCChHHHHHHHHHHHHcCC--Ccc----HhhHHHHHH
Q 039362          233 QTSLIDMYAKCGAIKEALIVFHGVEKHQSDVLIWNAMIGGLAMHGFVKESLELFTEMQIVGI--TPD----EITFLGLLS  306 (440)
Q Consensus       233 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~--~p~----~~~~~~l~~  306 (440)
                      +..+...+...|++++|...|+++.+...+...+..+...+...|++++|...++++.+...  .|+    ..++..+..
T Consensus         8 ~~~~g~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~   87 (258)
T 3uq3_A            8 EKAEGNKFYKARQFDEAIEHYNKAWELHKDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISKSFARIGN   87 (258)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHSCCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHHhhccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHH
Confidence            33444444444444444444444433223344444444444555555555555544443210  011    244555555


Q ss_pred             HHHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcC-CCCc-cHhHHHHHHHHHHhcCChhHH
Q 039362          307 ACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQM-PLEP-TASMLGSLLTGCMNHGKLDLA  384 (440)
Q Consensus       307 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a  384 (440)
                      .+...|++++|...++++.+..  |+       ...+...|++++|...++++ ...| +...+..++..+...|++++|
T Consensus        88 ~~~~~~~~~~A~~~~~~a~~~~--~~-------~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A  158 (258)
T 3uq3_A           88 AYHKLGDLKKTIEYYQKSLTEH--RT-------ADILTKLRNAEKELKKAEAEAYVNPEKAEEARLEGKEYFTKSDWPNA  158 (258)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC--CC-------HHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHcccHHHHHHHHHHHHhcC--ch-------hHHHHHHhHHHHHHHHHHHHHHcCcchHHHHHHHHHHHHHhcCHHHH
Confidence            5566666666666666655532  22       13455566677777777776 3344 456788889999999999999


Q ss_pred             HHHHHHHHhcCCCCCchHHHHHHHHHhccChHHHHHHHHHHHhcCC
Q 039362          385 EIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEARTTREAMETRGV  430 (440)
Q Consensus       385 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  430 (440)
                      ...++++++..|.++.++..++.++...|++++|.+.+++..+...
T Consensus       159 ~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~  204 (258)
T 3uq3_A          159 VKAYTEMIKRAPEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDP  204 (258)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHhcCcccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCH
Confidence            9999999999999999999999999999999999999999988653

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.77  E-value=9.2e-17  Score=136.62  Aligned_cols=243  Identities=11%  Similarity=-0.101  Sum_probs=188.3

Q ss_pred             hcCCHHHHHHHHHHHHhcCCC---CCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHH
Q 039362          172 KCGDYKEALVIFEEMRDVGSK---ANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKE  248 (440)
Q Consensus       172 ~~~~~~~a~~~~~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  248 (440)
                      ..|++++|+..++++.+....   .+...+..+..++...|++++|...++++.+.. +.+..++..++.+|...|++++
T Consensus        17 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~   95 (275)
T 1xnf_A           17 PTLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDA   95 (275)
T ss_dssp             CCHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHH
T ss_pred             ccchHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHccCHHH
Confidence            457788888888888775321   134567778888888899999999999888876 6677888889999999999999


Q ss_pred             HHHHHhhhhhcCC-chhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHhhc
Q 039362          249 ALIVFHGVEKHQS-DVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKR  327 (440)
Q Consensus       249 A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  327 (440)
                      |...|+++.+..| +...+..+...+...|++++|...++++.+.  .|+.......+..+...|++++|...+++....
T Consensus        96 A~~~~~~al~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~--~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~  173 (275)
T 1xnf_A           96 AYEAFDSVLELDPTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQD--DPNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEK  173 (275)
T ss_dssp             HHHHHHHHHHHCTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCccccHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHhcCHHHHHHHHHHHHhc
Confidence            9999999887766 5778888889999999999999999998876  344444444445556678999999999887775


Q ss_pred             CCCCCcchHHHHHHHHHhcCCHHHHHHHHhcC-CCCcc-----HhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCCch
Q 039362          328 GMVPKSEHYACMVDALSRAGQVTEAYEFICQM-PLEPT-----ASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGR  401 (440)
Q Consensus       328 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p~-----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~  401 (440)
                      . +++... ..++..+...++.++|.+.+++. ...|+     ...+..++..+...|++++|...++++++.+|.+.. 
T Consensus       174 ~-~~~~~~-~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~-  250 (275)
T 1xnf_A          174 S-DKEQWG-WNIVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANNVHNFV-  250 (275)
T ss_dssp             S-CCCSTH-HHHHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCTTCH-
T ss_pred             C-CcchHH-HHHHHHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCchhHH-
Confidence            3 233333 44777788888889999998887 44442     577888999999999999999999999999987754 


Q ss_pred             HHHHHHHHHhccChHHHHHHH
Q 039362          402 YVGLSNVYAIFKRWDEARTTR  422 (440)
Q Consensus       402 ~~~l~~~~~~~g~~~~A~~~~  422 (440)
                        ....++...|++++|.+.+
T Consensus       251 --~~~~~~~~l~~~~~a~~~~  269 (275)
T 1xnf_A          251 --EHRYALLELSLLGQDQDDL  269 (275)
T ss_dssp             --HHHHHHHHHHHHHHC----
T ss_pred             --HHHHHHHHHHHHHhhHHHH
Confidence              3466788899999998876

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.77  E-value=6.6e-17  Score=137.32  Aligned_cols=248  Identities=12%  Similarity=0.002  Sum_probs=148.5

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCc--hhhHHHHHHHH
Q 039362          163 WSALIDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLT--LPLQTSLIDMY  240 (440)
Q Consensus       163 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~  240 (440)
                      +......+...|++++|+..|++..+.. +.+...+..+..++...|++++|...++.+.+....++  ...+..+..+|
T Consensus         6 ~~~~a~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg~~~   84 (272)
T 3u4t_A            6 EFRYADFLFKNNNYAEAIEVFNKLEAKK-YNSPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYYGKIL   84 (272)
T ss_dssp             HHHHHHHHHTTTCHHHHHHHHHHHHHTT-CCCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHHHHH
Confidence            3445556666666666666666665543 22333555566666666666666666666665221111  12356666666


Q ss_pred             HhcCCHHHHHHHHhhhhhcCC-chhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHH
Q 039362          241 AKCGAIKEALIVFHGVEKHQS-DVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWY  319 (440)
Q Consensus       241 ~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~  319 (440)
                      ...|++++|+..|+++.+..| +...+..+...+...|++++|+..+++..+.. +.+...+..+...+...+++++|..
T Consensus        85 ~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~  163 (272)
T 3u4t_A           85 MKKGQDSLAIQQYQAAVDRDTTRLDMYGQIGSYFYNKGNFPLAIQYMEKQIRPT-TTDPKVFYELGQAYYYNKEYVKADS  163 (272)
T ss_dssp             HHTTCHHHHHHHHHHHHHHSTTCTHHHHHHHHHHHHTTCHHHHHHHHGGGCCSS-CCCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHcccHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHccCHHHHHHHHHHHhhcC-CCcHHHHHHHHHHHHHHHHHHHHHH
Confidence            666666666666666665544 34566666666666667777766666665542 2334445555523333347777777


Q ss_pred             HHHHHhhcCCCCCcchHHHHHHHHHhcCC---HHHHHHHHhcC----CCCcc------HhHHHHHHHHHHhcCChhHHHH
Q 039362          320 FFKSLGKRGMVPKSEHYACMVDALSRAGQ---VTEAYEFICQM----PLEPT------ASMLGSLLTGCMNHGKLDLAEI  386 (440)
Q Consensus       320 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~---~~~a~~~~~~~----~~~p~------~~~~~~l~~~~~~~g~~~~a~~  386 (440)
                      .|+++.+.. +.+...+..+...+...|+   +++|...++++    ...|+      ...+..+...+...|++++|..
T Consensus       164 ~~~~a~~~~-p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~  242 (272)
T 3u4t_A          164 SFVKVLELK-PNIYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCAPGGAKYKDELIEANEYIAYYYTINRDKVKADA  242 (272)
T ss_dssp             HHHHHHHHS-TTCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHGGGGGGGHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHhC-ccchHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHcCCHHHHHH
Confidence            777766643 1134455556666666666   55666666655    11233      2567778888999999999999


Q ss_pred             HHHHHHhcCCCCCchHHHHHHHHHhcc
Q 039362          387 VGKKLVELQPDHDGRYVGLSNVYAIFK  413 (440)
Q Consensus       387 ~~~~~~~~~~~~~~~~~~l~~~~~~~g  413 (440)
                      .++++++.+|.++.++..+.......+
T Consensus       243 ~~~~al~~~p~~~~a~~~l~~~~~~~~  269 (272)
T 3u4t_A          243 AWKNILALDPTNKKAIDGLKMKLEHHH  269 (272)
T ss_dssp             HHHHHHHHCTTCHHHHHHHC-------
T ss_pred             HHHHHHhcCccHHHHHHHhhhhhcccc
Confidence            999999999999887777766554443

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.76  E-value=3.7e-17  Score=148.78  Aligned_cols=377  Identities=10%  Similarity=-0.030  Sum_probs=192.2

Q ss_pred             HHHHHHccCChhhHHHHHHHHHHcCCCCCcchHHHHHHHhhchhcH---HHHHHHHHHHHHcCCCCcHHHHHHHHHHHHh
Q 039362           34 VIRGYSKSKNPNKSISLFVKMLRAGVSPDHLTYPFLAKASGRLAKR---ELAVAVHAQIAKTGYESDLFISNSLIHMYGS  110 (440)
Q Consensus        34 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~---~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  110 (440)
                      +...+.+.|++++|+++|++..+.|   +...+..+...+...|++   ++|..+|+...+.    ++..+..+...+..
T Consensus         9 la~~~~~~g~~~~A~~~~~~aa~~g---~~~A~~~Lg~~y~~~g~~~d~~~A~~~~~~A~~~----~~~A~~~Lg~~~~~   81 (452)
T 3e4b_A            9 LANEALKRGDTVTAQQNYQQLAELG---YSEAQVGLADIQVGTRDPAQIKQAEATYRAAADT----SPRAQARLGRLLAA   81 (452)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHT---CCTGGGTCC--------------------------------CHHHHHHHHHT
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHccCCCCCHHHHHHHHHHHHhC----CHHHHHHHHHHHHh
Confidence            3444555566666666666655543   233333444444445555   5666666555533    23333444443333


Q ss_pred             cC-----CHHHHHHHhhCCCCC-chhhHHHHHHHHHhcCChHH---HHHHHhhCCC-CchhhHHHHHHHHHhcCCHHHHH
Q 039362          111 CG-----DIVYAREVFDGMPTK-MSVSWNSMLDGYAKCGEMNM---ARQVFELMPE-RNVVSWSALIDGYVKCGDYKEAL  180 (440)
Q Consensus       111 ~g-----~~~~a~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~---a~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~  180 (440)
                      .+     ++++|...|++..++ +...+..|...|...+..++   +.+.+....+ .+...+..+...|...+.++++.
T Consensus        82 ~~~~~~~~~~~A~~~~~~Aa~~g~~~A~~~Lg~~y~~~~~~~~~~~a~~~~~~a~~~g~~~a~~~Lg~~y~~~~~~~~~~  161 (452)
T 3e4b_A           82 KPGATEAEHHEAESLLKKAFANGEGNTLIPLAMLYLQYPHSFPNVNAQQQISQWQAAGYPEAGLAQVLLYRTQGTYDQHL  161 (452)
T ss_dssp             C--CCHHHHHHHHHHHHHHHHTTCSSCHHHHHHHHHHCGGGCTTCCHHHHHHHHHHHTCTTHHHHHHHHHHHHTCGGGGH
T ss_pred             CCCCCCcCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCcccCH
Confidence            33     455566555554432 23345555555544443322   2223322222 24555666666666666443333


Q ss_pred             HHHHHHHhcCCCCCHHHHHHHHHHHHhcC---ChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhc----CCHHHHHHHH
Q 039362          181 VIFEEMRDVGSKANEVTLVSVLCACAHLG---ALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKC----GAIKEALIVF  253 (440)
Q Consensus       181 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----g~~~~A~~~~  253 (440)
                      .....+.+.-...+...+..+...+...|   +.++|...|++..+.+ +++...+..+...|...    +++++|...|
T Consensus       162 ~~a~~~~~~a~~~~~~a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g-~~~a~~~~~Lg~~y~~g~~~~~d~~~A~~~~  240 (452)
T 3e4b_A          162 DDVERICKAALNTTDICYVELATVYQKKQQPEQQAELLKQMEAGVSRG-TVTAQRVDSVARVLGDATLGTPDEKTAQALL  240 (452)
T ss_dssp             HHHHHHHHHHTTTCTTHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTT-CSCHHHHHHHHHHHTCGGGSSCCHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcccHHHHHHHHHHHHHCC-CHHHHHHHHHHHHHhCCCCCCCCHHHHHHHH
Confidence            33222211111122225566666666677   7777777777777766 55555555566666544    5777777777


Q ss_pred             hhhhhcCCchhhHHHHHHH-H--HhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCC-----ChHHHHHHHHHHh
Q 039362          254 HGVEKHQSDVLIWNAMIGG-L--AMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGG-----LVMEAWYFFKSLG  325 (440)
Q Consensus       254 ~~~~~~~~~~~~~~~l~~~-~--~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~-----~~~~a~~~~~~~~  325 (440)
                      ++..  ..+...+..+... +  ...+++++|+..|++..+.|   +...+..+...|. .|     ++++|...|++..
T Consensus       241 ~~aa--~g~~~a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~g---~~~A~~~Lg~~y~-~G~g~~~d~~~A~~~~~~Aa  314 (452)
T 3e4b_A          241 EKIA--PGYPASWVSLAQLLYDFPELGDVEQMMKYLDNGRAAD---QPRAELLLGKLYY-EGKWVPADAKAAEAHFEKAV  314 (452)
T ss_dssp             HHHG--GGSTHHHHHHHHHHHHSGGGCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHH-HCSSSCCCHHHHHHHHHTTT
T ss_pred             HHHc--CCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHH-cCCCCCCCHHHHHHHHHHHh
Confidence            7766  3345556666555 3  35677777777777777655   3445555555555 34     7777777777766


Q ss_pred             hcCCCCCcchHHHHHHHHHh----cCCHHHHHHHHhcCCCCccHhHHHHHHHHHHh----cCChhHHHHHHHHHHhcCCC
Q 039362          326 KRGMVPKSEHYACMVDALSR----AGQVTEAYEFICQMPLEPTASMLGSLLTGCMN----HGKLDLAEIVGKKLVELQPD  397 (440)
Q Consensus       326 ~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~~~  397 (440)
                       .|   +......|...|..    ..++++|..+|++.-...+......|...|..    ..+.++|...|+++.+.+++
T Consensus       315 -~g---~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~A~~~g~~  390 (452)
T 3e4b_A          315 -GR---EVAADYYLGQIYRRGYLGKVYPQKALDHLLTAARNGQNSADFAIAQLFSQGKGTKPDPLNAYVFSQLAKAQDTP  390 (452)
T ss_dssp             -TT---CHHHHHHHHHHHHTTTTSSCCHHHHHHHHHHHHTTTCTTHHHHHHHHHHSCTTBCCCHHHHHHHHHHHHTTCCH
T ss_pred             -CC---CHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHhhChHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHCCCH
Confidence             32   44555666666655    33777777777776222344445556555543    45777888888888777754


Q ss_pred             CCchHHHHHHHHHhccChHHHHHHHHHHHhc
Q 039362          398 HDGRYVGLSNVYAIFKRWDEARTTREAMETR  428 (440)
Q Consensus       398 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  428 (440)
                      ........+......++..+|..+.++..+.
T Consensus       391 ~a~~~l~~l~~~~~~~~~~~a~~~~~~~~~~  421 (452)
T 3e4b_A          391 EANDLATQLEAPLTPAQRAEGQRLVQQELAA  421 (452)
T ss_dssp             HHHHHHHHHHTTCCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHHHHHh
Confidence            4332222222223345566676666665543

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.75  E-value=3.8e-16  Score=142.17  Aligned_cols=346  Identities=11%  Similarity=-0.023  Sum_probs=238.5

Q ss_pred             HHHHHhhchhcHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhcCCH---HHHHHHhhCCCCCchhhHHHHHHHHHhcC-
Q 039362           68 FLAKASGRLAKRELAVAVHAQIAKTGYESDLFISNSLIHMYGSCGDI---VYAREVFDGMPTKMSVSWNSMLDGYAKCG-  143 (440)
Q Consensus        68 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~---~~a~~~~~~~~~~~~~~~~~l~~~~~~~~-  143 (440)
                      .+...+.+.|++++|.++|+...+.|.   ...+..|...|...|+.   ++|...|++..+.++..+..+...+...+ 
T Consensus         8 ~la~~~~~~g~~~~A~~~~~~aa~~g~---~~A~~~Lg~~y~~~g~~~d~~~A~~~~~~A~~~~~~A~~~Lg~~~~~~~~   84 (452)
T 3e4b_A            8 RLANEALKRGDTVTAQQNYQQLAELGY---SEAQVGLADIQVGTRDPAQIKQAEATYRAAADTSPRAQARLGRLLAAKPG   84 (452)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHTC---CTGGGTCC----------------------------CHHHHHHHHHTC--
T ss_pred             HHHHHHHhCCCHHHHHHHHHHHHHCCC---HHHHHHHHHHHHccCCCCCHHHHHHHHHHHHhCCHHHHHHHHHHHHhCCC
Confidence            356677889999999999999998763   33455566677778888   99999999988777777888887666555 


Q ss_pred             ----ChHHHHHHHhhCCCC-chhhHHHHHHHHHhcCCHH---HHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHH
Q 039362          144 ----EMNMARQVFELMPER-NVVSWSALIDGYVKCGDYK---EALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGR  215 (440)
Q Consensus       144 ----~~~~a~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~---~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  215 (440)
                          +.++|...|++..++ +...+..+...|...+..+   ++.+.+......|.   ......+...|...+.++++.
T Consensus        85 ~~~~~~~~A~~~~~~Aa~~g~~~A~~~Lg~~y~~~~~~~~~~~a~~~~~~a~~~g~---~~a~~~Lg~~y~~~~~~~~~~  161 (452)
T 3e4b_A           85 ATEAEHHEAESLLKKAFANGEGNTLIPLAMLYLQYPHSFPNVNAQQQISQWQAAGY---PEAGLAQVLLYRTQGTYDQHL  161 (452)
T ss_dssp             CCHHHHHHHHHHHHHHHHTTCSSCHHHHHHHHHHCGGGCTTCCHHHHHHHHHHHTC---TTHHHHHHHHHHHHTCGGGGH
T ss_pred             CCCcCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHCCC---HHHHHHHHHHHHcCCCcccCH
Confidence                788999999988763 4567888888887766533   45555655555552   345556677777777555555


Q ss_pred             HHHHHHHHcCCCCchhhHHHHHHHHHhcC---CHHHHHHHHhhhhhcCC-chhhHHHHHHHHHhc----CChHHHHHHHH
Q 039362          216 MMLRYMIDKGLSLTLPLQTSLIDMYAKCG---AIKEALIVFHGVEKHQS-DVLIWNAMIGGLAMH----GFVKESLELFT  287 (440)
Q Consensus       216 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g---~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~----~~~~~a~~~~~  287 (440)
                      .....+.+.-...++..+..|..+|...|   +.++|+..|++..+..+ +...+..+...|...    +++++|+..|+
T Consensus       162 ~~a~~~~~~a~~~~~~a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g~~~a~~~~~Lg~~y~~g~~~~~d~~~A~~~~~  241 (452)
T 3e4b_A          162 DDVERICKAALNTTDICYVELATVYQKKQQPEQQAELLKQMEAGVSRGTVTAQRVDSVARVLGDATLGTPDEKTAQALLE  241 (452)
T ss_dssp             HHHHHHHHHHTTTCTTHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCSCHHHHHHHHHHHTCGGGSSCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHH
Confidence            44333333322344448888999999999   99999999999887655 444446677777554    79999999999


Q ss_pred             HHHHcCCCccHhhHHHHHHH-H--HcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcC-----CHHHHHHHHhcC
Q 039362          288 EMQIVGITPDEITFLGLLSA-C--AHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAG-----QVTEAYEFICQM  359 (440)
Q Consensus       288 ~m~~~~~~p~~~~~~~l~~~-~--~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-----~~~~a~~~~~~~  359 (440)
                      +.. .|   +...+..+... +  ...+++++|...|++..+.|   +...+..|...|. .|     ++++|.++|++.
T Consensus       242 ~aa-~g---~~~a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~g---~~~A~~~Lg~~y~-~G~g~~~d~~~A~~~~~~A  313 (452)
T 3e4b_A          242 KIA-PG---YPASWVSLAQLLYDFPELGDVEQMMKYLDNGRAAD---QPRAELLLGKLYY-EGKWVPADAKAAEAHFEKA  313 (452)
T ss_dssp             HHG-GG---STHHHHHHHHHHHHSGGGCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHH-HCSSSCCCHHHHHHHHHTT
T ss_pred             HHc-CC---CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHH-cCCCCCCCHHHHHHHHHHH
Confidence            987 43   34455555555 3  46899999999999999876   5667777888777 55     999999999999


Q ss_pred             CCCccHhHHHHHHHHHHh----cCChhHHHHHHHHHHhcCCCCCchHHHHHHHHHh----ccChHHHHHHHHHHHhcCC
Q 039362          360 PLEPTASMLGSLLTGCMN----HGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAI----FKRWDEARTTREAMETRGV  430 (440)
Q Consensus       360 ~~~p~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~~  430 (440)
                      - ..++.....|...|..    ..++++|...|+++.+.+  ++.....++.+|..    ..+.++|...+++..+.|.
T Consensus       314 a-~g~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g--~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~A~~~g~  389 (452)
T 3e4b_A          314 V-GREVAADYYLGQIYRRGYLGKVYPQKALDHLLTAARNG--QNSADFAIAQLFSQGKGTKPDPLNAYVFSQLAKAQDT  389 (452)
T ss_dssp             T-TTCHHHHHHHHHHHHTTTTSSCCHHHHHHHHHHHHTTT--CTTHHHHHHHHHHSCTTBCCCHHHHHHHHHHHHTTCC
T ss_pred             h-CCCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHhhC--hHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHCCC
Confidence            8 6677788888877765    449999999999998865  45678889998875    4589999999999988775

>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=99.74  E-value=3.7e-16  Score=137.90  Aligned_cols=249  Identities=8%  Similarity=-0.004  Sum_probs=192.7

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCC-hHHHHHHHHHHHHcCCCCchhhHHHHHH
Q 039362          160 VVSWSALIDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGA-LDQGRMMLRYMIDKGLSLTLPLQTSLID  238 (440)
Q Consensus       160 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~l~~  238 (440)
                      ...|..+...+...|++++|+..+++.+... +-+...|..+..++...|+ +++|+..++++++.+ +.+..+|..+..
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-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHRRV  174 (382)
T ss_dssp             HHHHHHHHHHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCChHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHC-CCCHHHHHHHHH
Confidence            4567777788888888888888888887764 4456677778888888886 888888888888876 667788888888


Q ss_pred             HHHhcCCHHHHHHHHhhhhhcCC-chhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHc-CCChHH
Q 039362          239 MYAKCGAIKEALIVFHGVEKHQS-DVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAH-GGLVME  316 (440)
Q Consensus       239 ~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~-~~~~~~  316 (440)
                      ++...|++++|+..|+++....| +...|..+..++...|++++|+..++++.+.. +-+...|..+..++.. .|..++
T Consensus       175 ~~~~~g~~~eAl~~~~kal~ldP~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l~-P~~~~a~~~lg~~l~~l~~~~~e  253 (382)
T 2h6f_A          175 LVEWLRDPSQELEFIADILNQDAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKED-VRNNSVWNQRYFVISNTTGYNDR  253 (382)
T ss_dssp             HHHHHTCCTTHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCSCSH
T ss_pred             HHHHccCHHHHHHHHHHHHHhCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCcchH
Confidence            88888888888888888887766 56788888888888888888888888888764 4456778888888877 555466


Q ss_pred             H-----HHHHHHHhhcCCCCCcchHHHHHHHHHhcC--CHHHHHHHHhcCCCCcc-HhHHHHHHHHHHhcC--------C
Q 039362          317 A-----WYFFKSLGKRGMVPKSEHYACMVDALSRAG--QVTEAYEFICQMPLEPT-ASMLGSLLTGCMNHG--------K  380 (440)
Q Consensus       317 a-----~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--~~~~a~~~~~~~~~~p~-~~~~~~l~~~~~~~g--------~  380 (440)
                      |     +..++++++.. +-+...|..+...+...|  ++++|++.++++...|+ ...+..++..+.+.|        +
T Consensus       254 A~~~~el~~~~~Al~l~-P~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~~~~p~~~~al~~La~~~~~~~~~~~~~~~~  332 (382)
T 2h6f_A          254 AVLEREVQYTLEMIKLV-PHNESAWNYLKGILQDRGLSKYPNLLNQLLDLQPSHSSPYLIAFLVDIYEDMLENQCDNKED  332 (382)
T ss_dssp             HHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHTTTCGGGCHHHHHHHHHHTTTCCCHHHHHHHHHHHHHHHHTTCSSHHH
T ss_pred             HHHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHccCccchHHHHHHHHHhccCCCCHHHHHHHHHHHHHHhcccccchHH
Confidence            6     47788877754 124567777788888877  57888888887744453 466777888887764        2


Q ss_pred             -hhHHHHHHHHH-HhcCCCCCchHHHHHHHHHhc
Q 039362          381 -LDLAEIVGKKL-VELQPDHDGRYVGLSNVYAIF  412 (440)
Q Consensus       381 -~~~a~~~~~~~-~~~~~~~~~~~~~l~~~~~~~  412 (440)
                       .++|+.+++++ .+.+|.....|..++..+...
T Consensus       333 ~~~~A~~~~~~l~~~~DP~r~~~w~~~~~~l~~~  366 (382)
T 2h6f_A          333 ILNKALELCEILAKEKDTIRKEYWRYIGRSLQSK  366 (382)
T ss_dssp             HHHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhCchhHHHHHHHHHHHHHH
Confidence             58999999999 899999888888887776543

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.73  E-value=6.3e-16  Score=126.18  Aligned_cols=196  Identities=15%  Similarity=0.044  Sum_probs=107.7

Q ss_pred             chhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHH
Q 039362          159 NVVSWSALIDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLID  238 (440)
Q Consensus       159 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  238 (440)
                      +...+..+...+.+.|++++|...|++..+.. +.+...+..+..++.+.|++++|...+++..+.. |.+...+..+..
T Consensus         4 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~   81 (217)
T 2pl2_A            4 AEQNPLRLGVQLYALGRYDAALTLFERALKEN-PQDPEALYWLARTQLKLGLVNPALENGKTLVART-PRYLGGYMVLSE   81 (217)
T ss_dssp             CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTTS-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHH
Confidence            34455556666666666666666666665543 3345555566666666666666666666666654 445556666666


Q ss_pred             HHHhc-----------CCHHHHHHHHhhhhhcCC-chhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHH
Q 039362          239 MYAKC-----------GAIKEALIVFHGVEKHQS-DVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLS  306 (440)
Q Consensus       239 ~~~~~-----------g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~  306 (440)
                      ++...           |++++|+..|++..+..| +...+..+...+...|++++|+..|++..+..  .+...+..+..
T Consensus        82 ~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~la~  159 (217)
T 2pl2_A           82 AYVALYRQAEDRERGKGYLEQALSVLKDAERVNPRYAPLHLQRGLVYALLGERDKAEASLKQALALE--DTPEIRSALAE  159 (217)
T ss_dssp             HHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHHHHH
T ss_pred             HHHHhhhhhhhhcccccCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCChHHHHHHHHHHHhcc--cchHHHHHHHH
Confidence            66666           666666666666655555 34455556666666666666666666665554  44555555666


Q ss_pred             HHHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcC
Q 039362          307 ACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQM  359 (440)
Q Consensus       307 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  359 (440)
                      ++...|++++|+..|+++.+.. +.+...+..+...+...|++++|.+.+++.
T Consensus       160 ~~~~~g~~~~A~~~~~~al~~~-P~~~~~~~~la~~~~~~g~~~~A~~~~~~~  211 (217)
T 2pl2_A          160 LYLSMGRLDEALAQYAKALEQA-PKDLDLRVRYASALLLKGKAEEAARAAALE  211 (217)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHTC--------------
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHccCHHHHHHHHHHH
Confidence            6666666666666666665542 113444555555555666666665555543

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.73  E-value=8.5e-16  Score=130.44  Aligned_cols=232  Identities=9%  Similarity=-0.085  Sum_probs=191.4

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCCchh----hHHHHHH
Q 039362          196 VTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQSDVL----IWNAMIG  271 (440)
Q Consensus       196 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~----~~~~l~~  271 (440)
                      ..+......+...|++++|...++++.+.. +.+...+..+..+|...|++++|+..++++....++..    .|..+..
T Consensus         4 ~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg~   82 (272)
T 3u4t_A            4 DVEFRYADFLFKNNNYAEAIEVFNKLEAKK-YNSPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYYGK   82 (272)
T ss_dssp             -CHHHHHHHHHTTTCHHHHHHHHHHHHHTT-CCCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHHH
Confidence            345566778889999999999999999876 56677899999999999999999999999987433333    3888999


Q ss_pred             HHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHH
Q 039362          272 GLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTE  351 (440)
Q Consensus       272 ~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  351 (440)
                      .+...|++++|+..|++..+.. +.+...+..+...+...|++++|...++++.+.. +.+...+..+...+...+++++
T Consensus        83 ~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~  160 (272)
T 3u4t_A           83 ILMKKGQDSLAIQQYQAAVDRD-TTRLDMYGQIGSYFYNKGNFPLAIQYMEKQIRPT-TTDPKVFYELGQAYYYNKEYVK  160 (272)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHGGGCCSS-CCCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHcccHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHhhcC-CCcHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999999998864 4456789999999999999999999999998863 2345667777734445569999


Q ss_pred             HHHHHhcC-CCCcc-HhHHHHHHHHHHhcCC---hhHHHHHHHHHHhcC---CCCC-----chHHHHHHHHHhccChHHH
Q 039362          352 AYEFICQM-PLEPT-ASMLGSLLTGCMNHGK---LDLAEIVGKKLVELQ---PDHD-----GRYVGLSNVYAIFKRWDEA  418 (440)
Q Consensus       352 a~~~~~~~-~~~p~-~~~~~~l~~~~~~~g~---~~~a~~~~~~~~~~~---~~~~-----~~~~~l~~~~~~~g~~~~A  418 (440)
                      |.+.++++ ...|+ ...+..+...+...|+   +++|...++++.+..   |...     .++..++..|...|++++|
T Consensus       161 A~~~~~~a~~~~p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A  240 (272)
T 3u4t_A          161 ADSSFVKVLELKPNIYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCAPGGAKYKDELIEANEYIAYYYTINRDKVKA  240 (272)
T ss_dssp             HHHHHHHHHHHSTTCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHGGGGGGGHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHhCccchHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHcCCHHHH
Confidence            99999998 44554 5777778888888888   888999999999875   3321     4788899999999999999


Q ss_pred             HHHHHHHHhcCC
Q 039362          419 RTTREAMETRGV  430 (440)
Q Consensus       419 ~~~~~~~~~~~~  430 (440)
                      .+.++++.+..+
T Consensus       241 ~~~~~~al~~~p  252 (272)
T 3u4t_A          241 DAAWKNILALDP  252 (272)
T ss_dssp             HHHHHHHHHHCT
T ss_pred             HHHHHHHHhcCc
Confidence            999999988654

>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=99.72  E-value=8.5e-16  Score=135.58  Aligned_cols=231  Identities=11%  Similarity=0.021  Sum_probs=199.3

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCC-HHHHHHHHhhhhhcCC-chhhHHHHHHH
Q 039362          195 EVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGA-IKEALIVFHGVEKHQS-DVLIWNAMIGG  272 (440)
Q Consensus       195 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~-~~~A~~~~~~~~~~~~-~~~~~~~l~~~  272 (440)
                      ...+..+..++...|++++|+..++++++.+ +.+..+|..+..++...|+ +++|+..|+++....| +...|..+..+
T Consensus        97 ~~a~~~lg~~~~~~g~~~~Al~~~~~al~l~-P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~P~~~~a~~~~g~~  175 (382)
T 2h6f_A           97 RDVYDYFRAVLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPKNYQVWHHRRVL  175 (382)
T ss_dssp             HHHHHHHHHHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCChHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHCCCCHHHHHHHHHH
Confidence            3456777788889999999999999999987 7788999999999999997 9999999999998877 57889999999


Q ss_pred             HHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHh-cCCHHH
Q 039362          273 LAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSR-AGQVTE  351 (440)
Q Consensus       273 ~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~  351 (440)
                      +...|++++|+..|+++.+.. +-+...|..+..++...|++++|+..++++++... -+...|+.+..++.. .|..++
T Consensus       176 ~~~~g~~~eAl~~~~kal~ld-P~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l~P-~~~~a~~~lg~~l~~l~~~~~e  253 (382)
T 2h6f_A          176 VEWLRDPSQELEFIADILNQD-AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDV-RNNSVWNQRYFVISNTTGYNDR  253 (382)
T ss_dssp             HHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCSCSH
T ss_pred             HHHccCHHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhcCcchH
Confidence            999999999999999999875 55677899999999999999999999999999752 267789999999999 666577


Q ss_pred             H-----HHHHhcC-CCCc-cHhHHHHHHHHHHhcC--ChhHHHHHHHHHHhcCCCCCchHHHHHHHHHhcc---------
Q 039362          352 A-----YEFICQM-PLEP-TASMLGSLLTGCMNHG--KLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFK---------  413 (440)
Q Consensus       352 a-----~~~~~~~-~~~p-~~~~~~~l~~~~~~~g--~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g---------  413 (440)
                      |     ++.+++. .+.| +...|..+...+...|  ++++|++.++++ +.+|+++.++..++.+|.+.|         
T Consensus       254 A~~~~el~~~~~Al~l~P~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~-~~~p~~~~al~~La~~~~~~~~~~~~~~~~  332 (382)
T 2h6f_A          254 AVLEREVQYTLEMIKLVPHNESAWNYLKGILQDRGLSKYPNLLNQLLDL-QPSHSSPYLIAFLVDIYEDMLENQCDNKED  332 (382)
T ss_dssp             HHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHTTTCGGGCHHHHHHHHHH-TTTCCCHHHHHHHHHHHHHHHHTTCSSHHH
T ss_pred             HHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHccCccchHHHHHHHHHh-ccCCCCHHHHHHHHHHHHHHhcccccchHH
Confidence            7     4777776 5566 4578888888888888  689999999998 888999999999999999875         


Q ss_pred             ChHHHHHHHHHH-HhcC
Q 039362          414 RWDEARTTREAM-ETRG  429 (440)
Q Consensus       414 ~~~~A~~~~~~~-~~~~  429 (440)
                      ..++|.++++++ .+..
T Consensus       333 ~~~~A~~~~~~l~~~~D  349 (382)
T 2h6f_A          333 ILNKALELCEILAKEKD  349 (382)
T ss_dssp             HHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHHHhC
Confidence            358999999998 5543

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.72  E-value=4e-16  Score=132.63  Aligned_cols=242  Identities=7%  Similarity=-0.139  Sum_probs=183.8

Q ss_pred             hcCChHHHHHHHhhCCCC-------chhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHH
Q 039362          141 KCGEMNMARQVFELMPER-------NVVSWSALIDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQ  213 (440)
Q Consensus       141 ~~~~~~~a~~~~~~~~~~-------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  213 (440)
                      ..|++++|+..|+++.+.       +..++..+...+...|++++|...|+++.... +.+...+..+..++...|++++
T Consensus        17 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~   95 (275)
T 1xnf_A           17 PTLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDA   95 (275)
T ss_dssp             CCHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHH
T ss_pred             ccchHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHccCHHH
Confidence            346677777777776541       45678888889999999999999999988774 4467788888889999999999


Q ss_pred             HHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCCchhhHHHHHHHHHhcCChHHHHHHHHHHHHcC
Q 039362          214 GRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQSDVLIWNAMIGGLAMHGFVKESLELFTEMQIVG  293 (440)
Q Consensus       214 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~  293 (440)
                      |...++++.+.. +.+...+..+..+|...|++++|...|+++.+..|+.......+..+...|++++|...+++.....
T Consensus        96 A~~~~~~al~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~  174 (275)
T 1xnf_A           96 AYEAFDSVLELD-PTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQDDPNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKS  174 (275)
T ss_dssp             HHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHhcC-ccccHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhcCHHHHHHHHHHHHhcC
Confidence            999999998876 5677888899999999999999999999998877766655555566677799999999998877653


Q ss_pred             CCccHhhHHHHHHHHHcCCChHHHHHHHHHHhhcCCC--C-CcchHHHHHHHHHhcCCHHHHHHHHhcC-CCCccHhHHH
Q 039362          294 ITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKRGMV--P-KSEHYACMVDALSRAGQVTEAYEFICQM-PLEPTASMLG  369 (440)
Q Consensus       294 ~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p~~~~~~  369 (440)
                       +++...+ .++..+...++.++|...+..+......  | +...+..+...|...|++++|...++++ ...|+..  .
T Consensus       175 -~~~~~~~-~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~--~  250 (275)
T 1xnf_A          175 -DKEQWGW-NIVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANNVHNF--V  250 (275)
T ss_dssp             -CCCSTHH-HHHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCTTC--H
T ss_pred             -CcchHHH-HHHHHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCchhH--H
Confidence             4444444 4666777788888999999888764211  1 1467788899999999999999999988 6666442  2


Q ss_pred             HHHHHHHhcCChhHHHHHH
Q 039362          370 SLLTGCMNHGKLDLAEIVG  388 (440)
Q Consensus       370 ~l~~~~~~~g~~~~a~~~~  388 (440)
                      ....++...|++++|++.+
T Consensus       251 ~~~~~~~~l~~~~~a~~~~  269 (275)
T 1xnf_A          251 EHRYALLELSLLGQDQDDL  269 (275)
T ss_dssp             HHHHHHHHHHHHHHC----
T ss_pred             HHHHHHHHHHHHHhhHHHH
Confidence            3355667788888887776

>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=99.72  E-value=7.3e-15  Score=124.74  Aligned_cols=226  Identities=15%  Similarity=-0.035  Sum_probs=147.5

Q ss_pred             chhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHh----cCChHHHHHHHHHHHHcCCCCchhhHH
Q 039362          159 NVVSWSALIDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAH----LGALDQGRMMLRYMIDKGLSLTLPLQT  234 (440)
Q Consensus       159 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~  234 (440)
                      ++.++..+...+...|++++|...|++..+.   -+...+..+...+..    .+++++|...+++..+.+   +...+.
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            4566677777777788888888888877763   234566666777777    777888888877777665   556666


Q ss_pred             HHHHHHHh----cCCHHHHHHHHhhhhhcCCchhhHHHHHHHHHh----cCChHHHHHHHHHHHHcCCCccHhhHHHHHH
Q 039362          235 SLIDMYAK----CGAIKEALIVFHGVEKHQSDVLIWNAMIGGLAM----HGFVKESLELFTEMQIVGITPDEITFLGLLS  306 (440)
Q Consensus       235 ~l~~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~  306 (440)
                      .+...|..    .+++++|+..|++..+. .+...+..+...|..    .+++++|+..|++..+.+   +...+..+..
T Consensus        79 ~lg~~~~~g~~~~~~~~~A~~~~~~a~~~-~~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~  154 (273)
T 1ouv_A           79 LLGNLYYSGQGVSQNTNKALQYYSKACDL-KYAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLN---DGDGCTILGS  154 (273)
T ss_dssp             HHHHHHHHTSSSCCCHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHH
T ss_pred             HHHHHHhCCCCcccCHHHHHHHHHHHHHc-CCccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhcC---cHHHHHHHHH
Confidence            77777777    77777777777776653 255666667777776    777777777777776654   3344555555


Q ss_pred             HHHc----CCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHh----cCCHHHHHHHHhcC-CCCccHhHHHHHHHHHHh
Q 039362          307 ACAH----GGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSR----AGQVTEAYEFICQM-PLEPTASMLGSLLTGCMN  377 (440)
Q Consensus       307 ~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~-~~~p~~~~~~~l~~~~~~  377 (440)
                      .+..    .+++++|...|++..+.+   +...+..+...|..    .+++++|.+.+++. ...| ...+..+...+..
T Consensus       155 ~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~~-~~a~~~l~~~~~~  230 (273)
T 1ouv_A          155 LYDAGRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELEN-GGGCFNLGAMQYN  230 (273)
T ss_dssp             HHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTTC-HHHHHHHHHHHHT
T ss_pred             HHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHhCCC-HHHHHHHHHHHHc
Confidence            6655    667777777777766643   33455556666666    66666666666655 2222 4445555555555


Q ss_pred             ----cCChhHHHHHHHHHHhcCCCC
Q 039362          378 ----HGKLDLAEIVGKKLVELQPDH  398 (440)
Q Consensus       378 ----~g~~~~a~~~~~~~~~~~~~~  398 (440)
                          .+++++|...++++.+.+|++
T Consensus       231 g~~~~~~~~~A~~~~~~a~~~~~~~  255 (273)
T 1ouv_A          231 GEGVTRNEKQAIENFKKGCKLGAKG  255 (273)
T ss_dssp             TSSSSCCSTTHHHHHHHHHHHTCHH
T ss_pred             CCCcccCHHHHHHHHHHHHHcCCHH
Confidence                666666666666666665543

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.71  E-value=1.2e-17  Score=157.50  Aligned_cols=124  Identities=14%  Similarity=0.133  Sum_probs=86.8

Q ss_pred             chhhHHHHHHHHHhcCCHHHHHHHHhhhhh-----cCCchhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHH
Q 039362          229 TLPLQTSLIDMYAKCGAIKEALIVFHGVEK-----HQSDVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLG  303 (440)
Q Consensus       229 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-----~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~  303 (440)
                      ...+|++++.+|++.|++++|..+|..|.+     ..||+.+||+||.+|++.|++++|.++|++|.+.|+.||..||++
T Consensus       126 ~~~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvTYnt  205 (1134)
T 3spa_A          126 QQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAA  205 (1134)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHH
Confidence            345667777777777777777777765542     267777777777777777777777777777777777777777777


Q ss_pred             HHHHHHcCCCh-HHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHH
Q 039362          304 LLSACAHGGLV-MEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEA  352 (440)
Q Consensus       304 l~~~~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  352 (440)
                      +|.++++.|+. ++|.++|++|.+.|+.||..+|+.++....+.+-++..
T Consensus       206 LI~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~~vL~~V  255 (1134)
T 3spa_A          206 ALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAV  255 (1134)
T ss_dssp             HHHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHHHHHHHH
T ss_pred             HHHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHHHHHHHH
Confidence            77777777764 56777777777777777777777776655554333333

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.71  E-value=3.9e-16  Score=130.07  Aligned_cols=209  Identities=12%  Similarity=0.081  Sum_probs=112.2

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCC-chhhHHHHHHHHHh
Q 039362          197 TLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQS-DVLIWNAMIGGLAM  275 (440)
Q Consensus       197 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~  275 (440)
                      .+..+...+...|++++|...++++.+.. +.+...+..+..++...|++++|...|+++....| +...+..+...+..
T Consensus        25 ~~~~~a~~~~~~~~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~  103 (243)
T 2q7f_A           25 TGGQQMGRGSEFGDYEKAAEAFTKAIEEN-KEDAIPYINFANLLSSVNELERALAFYDKALELDSSAATAYYGAGNVYVV  103 (243)
T ss_dssp             -----------------CCTTHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcchHHHHHHHHHHHH
Confidence            33444444455555555555555554433 33444555555555555555555555555554433 34455555555666


Q ss_pred             cCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHH
Q 039362          276 HGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEF  355 (440)
Q Consensus       276 ~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  355 (440)
                      .|++++|.+.++++.+.. +.+...+..+...+...|++++|...++++.+.. +.+...+..+...+...|++++|.+.
T Consensus       104 ~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~  181 (243)
T 2q7f_A          104 KEMYKEAKDMFEKALRAG-MENGDLFYMLGTVLVKLEQPKLALPYLQRAVELN-ENDTEARFQFGMCLANEGMLDEALSQ  181 (243)
T ss_dssp             TTCHHHHHHHHHHHHHHT-CCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCHHHHHH
T ss_pred             hccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHcCCHHHHHHH
Confidence            666666666666655543 3344455555666666666666666666665542 12344555566666666666666666


Q ss_pred             HhcC-CCCc-cHhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCCchHHHHHHH
Q 039362          356 ICQM-PLEP-TASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNV  408 (440)
Q Consensus       356 ~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~  408 (440)
                      ++++ ...| +..++..+...+...|++++|...++++.+..|.++..+..+...
T Consensus       182 ~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l  236 (243)
T 2q7f_A          182 FAAVTEQDPGHADAFYNAGVTYAYKENREKALEMLDKAIDIQPDHMLALHAKKLL  236 (243)
T ss_dssp             HHHHHHHCTTCHHHHHHHHHHHHHTTCTTHHHHHHHHHHHHCTTCHHHHHHHTC-
T ss_pred             HHHHHHhCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHccCcchHHHHHHHHHH
Confidence            6665 2222 345667777777777888888888888887777776665555443

>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=1.4e-14  Score=122.98  Aligned_cols=225  Identities=9%  Similarity=-0.072  Sum_probs=168.9

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHh----cCCHHHHHHHHhhhhhcCCchhhHHHH
Q 039362          194 NEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAK----CGAIKEALIVFHGVEKHQSDVLIWNAM  269 (440)
Q Consensus       194 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~~l  269 (440)
                      +..++..+...+...|++++|...|++..+   +.+...+..+...|..    .+++++|...|++..+.. +...+..+
T Consensus         5 ~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~---~~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~-~~~a~~~l   80 (273)
T 1ouv_A            5 DPKELVGLGAKSYKEKDFTQAKKYFEKACD---LKENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN-YSNGCHLL   80 (273)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHH---TTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT-CHHHHHHH
T ss_pred             ChHHHHHHHHHHHhCCCHHHHHHHHHHHHH---CCCHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC-CHHHHHHH
Confidence            445666677777788888888888888877   3345667777788888    888888888888877543 66777777


Q ss_pred             HHHHHh----cCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHc----CCChHHHHHHHHHHhhcCCCCCcchHHHHHH
Q 039362          270 IGGLAM----HGFVKESLELFTEMQIVGITPDEITFLGLLSACAH----GGLVMEAWYFFKSLGKRGMVPKSEHYACMVD  341 (440)
Q Consensus       270 ~~~~~~----~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  341 (440)
                      ...|..    .+++++|+..|++..+.+   +...+..+...+..    .+++++|...|++..+.+   +...+..+..
T Consensus        81 g~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~  154 (273)
T 1ouv_A           81 GNLYYSGQGVSQNTNKALQYYSKACDLK---YAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLN---DGDGCTILGS  154 (273)
T ss_dssp             HHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHH
T ss_pred             HHHHhCCCCcccCHHHHHHHHHHHHHcC---CccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhcC---cHHHHHHHHH
Confidence            778887    888888888888887764   55667777777777    788888888888887754   4556667777


Q ss_pred             HHHh----cCCHHHHHHHHhcCCCCccHhHHHHHHHHHHh----cCChhHHHHHHHHHHhcCCCCCchHHHHHHHHHh--
Q 039362          342 ALSR----AGQVTEAYEFICQMPLEPTASMLGSLLTGCMN----HGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAI--  411 (440)
Q Consensus       342 ~~~~----~~~~~~a~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~--  411 (440)
                      .|..    .+++++|...+++.--..+...+..+...+..    .+++++|+..++++.+.+|  +..+..++.+|..  
T Consensus       155 ~~~~~~~~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~~--~~a~~~l~~~~~~g~  232 (273)
T 1ouv_A          155 LYDAGRGTPKDLKKALASYDKACDLKDSPGCFNAGNMYHHGEGATKNFKEALARYSKACELEN--GGGCFNLGAMQYNGE  232 (273)
T ss_dssp             HHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTTC--HHHHHHHHHHHHTTS
T ss_pred             HHHcCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHhCCC--HHHHHHHHHHHHcCC
Confidence            7777    78888888888876112345666777777777    8888888888888888765  4567778888887  


Q ss_pred             --ccChHHHHHHHHHHHhcCC
Q 039362          412 --FKRWDEARTTREAMETRGV  430 (440)
Q Consensus       412 --~g~~~~A~~~~~~~~~~~~  430 (440)
                        .+++++|.+.+++..+.+.
T Consensus       233 ~~~~~~~~A~~~~~~a~~~~~  253 (273)
T 1ouv_A          233 GVTRNEKQAIENFKKGCKLGA  253 (273)
T ss_dssp             SSSCCSTTHHHHHHHHHHHTC
T ss_pred             CcccCHHHHHHHHHHHHHcCC
Confidence              7888888888888877654

>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=99.71  E-value=1.9e-15  Score=126.75  Aligned_cols=202  Identities=15%  Similarity=0.040  Sum_probs=96.6

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCC-chhhHHHHHHHHH
Q 039362          196 VTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQS-DVLIWNAMIGGLA  274 (440)
Q Consensus       196 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~  274 (440)
                      ..+..+...+...|++++|...++++.+.. +.+...+..+..+|...|++++|...|+++.+..| +...+..+...+.
T Consensus        38 ~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~  116 (252)
T 2ho1_A           38 DAYIQLGLGYLQRGNTEQAKVPLRKALEID-PSSADAHAALAVVFQTEMEPKLADEEYRKALASDSRNARVLNNYGGFLY  116 (252)
T ss_dssp             HHHHHHHHHHHHTTCTGGGHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHhcC-CChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCcHHHHHHHHHHHH
Confidence            344455555555556666666655555543 33445555555555555555555555555544433 3444555555555


Q ss_pred             hcCChHHHHHHHHHHHHcCCCc-cHhhHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHH
Q 039362          275 MHGFVKESLELFTEMQIVGITP-DEITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAY  353 (440)
Q Consensus       275 ~~~~~~~a~~~~~~m~~~~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  353 (440)
                      ..|++++|.+.++++...+..| +...+..+...+...|++++|...++++.+.. +.+...+..+...+...|++++|.
T Consensus       117 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~g~~~~A~  195 (252)
T 2ho1_A          117 EQKRYEEAYQRLLEASQDTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLN-RNQPSVALEMADLLYKEREYVPAR  195 (252)
T ss_dssp             HTTCHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHhHHHHHHHHHHHHHhCccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHcCCHHHHH
Confidence            5555555555555554421122 23344444445555555555555555554432 112333444444444444444444


Q ss_pred             HHHhcC-CCCc-cHhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCC
Q 039362          354 EFICQM-PLEP-TASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHD  399 (440)
Q Consensus       354 ~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~  399 (440)
                      ..++++ ...| +...+..+...+...|++++|..+++++.+..|.++
T Consensus       196 ~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~p~~~  243 (252)
T 2ho1_A          196 QYYDLFAQGGGQNARSLLLGIRLAKVFEDRDTAASYGLQLKRLYPGSL  243 (252)
T ss_dssp             HHHHHHHTTSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSH
T ss_pred             HHHHHHHHhCcCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCCCH
Confidence            444443 2222 223334444444444444444444444444444443

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.71  E-value=5.5e-17  Score=153.10  Aligned_cols=118  Identities=15%  Similarity=0.083  Sum_probs=91.2

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHH---hcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHH
Q 039362          160 VVSWSALIDGYVKCGDYKEALVIFEEMR---DVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSL  236 (440)
Q Consensus       160 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~---~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  236 (440)
                      ..+|+++|++|++.|++++|.++|.+|.   ..|+.||..||+++|.+|++.|++++|.++|++|.+.|+          
T Consensus       127 ~~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~----------  196 (1134)
T 3spa_A          127 QQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGL----------  196 (1134)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTC----------
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCC----------
Confidence            3478888888888888888888887764   346788888888888888888888888888888888877          


Q ss_pred             HHHHHhcCCHHHHHHHHhhhhhcCCchhhHHHHHHHHHhcCCh-HHHHHHHHHHHHcCCCccHhhHHHHHHHHHc
Q 039362          237 IDMYAKCGAIKEALIVFHGVEKHQSDVLIWNAMIGGLAMHGFV-KESLELFTEMQIVGITPDEITFLGLLSACAH  310 (440)
Q Consensus       237 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~-~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~  310 (440)
                                             .||..+|+++|.++++.|+. ++|.++|++|.+.|+.||..+|+.++.++.+
T Consensus       197 -----------------------~PDvvTYntLI~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR  248 (1134)
T 3spa_A          197 -----------------------TPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDR  248 (1134)
T ss_dssp             -----------------------CCCHHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHH
T ss_pred             -----------------------CCcHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhH
Confidence                                   55666666777777777764 6778888888888888888888888765544

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.71  E-value=5.6e-16  Score=140.01  Aligned_cols=264  Identities=12%  Similarity=0.006  Sum_probs=152.0

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCH----HHHHHHHHHHHhcCChHHHHHHHHHHHHc----C-CCCchhhHH
Q 039362          164 SALIDGYVKCGDYKEALVIFEEMRDVGSKANE----VTLVSVLCACAHLGALDQGRMMLRYMIDK----G-LSLTLPLQT  234 (440)
Q Consensus       164 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~-~~~~~~~~~  234 (440)
                      ..+...+...|++++|...|+++.+.+ +.+.    ..+..+..++...|++++|...+++..+.    + .+.....+.
T Consensus        52 ~~~g~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  130 (411)
T 4a1s_A           52 ALEGERLCNAGDCRAGVAFFQAAIQAG-TEDLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEAKSSG  130 (411)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC-CSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHhCcHHHHHHHHHHHHHhc-ccChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchHHHHHHH
Confidence            344455555666666666666655542 1121    24455555556666666666666555432    1 122234455


Q ss_pred             HHHHHHHhcCCHHHHHHHHhhhhhc------CC-chhhHHHHHHHHHhcCC-----------------hHHHHHHHHHHH
Q 039362          235 SLIDMYAKCGAIKEALIVFHGVEKH------QS-DVLIWNAMIGGLAMHGF-----------------VKESLELFTEMQ  290 (440)
Q Consensus       235 ~l~~~~~~~g~~~~A~~~~~~~~~~------~~-~~~~~~~l~~~~~~~~~-----------------~~~a~~~~~~m~  290 (440)
                      .+..+|...|++++|...++++...      .+ ....+..+...|...|+                 +++|++.+++..
T Consensus       131 ~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~~~al  210 (411)
T 4a1s_A          131 NLGNTLKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEFYQENL  210 (411)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHcCcccccccchhhhhhhhHHHHHHHHHHHHHH
Confidence            5666666666666666666655433      11 23355556666666666                 666666666543


Q ss_pred             Hc----CCCc-cHhhHHHHHHHHHcCCChHHHHHHHHHHhhcCCC-CC----cchHHHHHHHHHhcCCHHHHHHHHhcC-
Q 039362          291 IV----GITP-DEITFLGLLSACAHGGLVMEAWYFFKSLGKRGMV-PK----SEHYACMVDALSRAGQVTEAYEFICQM-  359 (440)
Q Consensus       291 ~~----~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~-  359 (440)
                      +.    +..+ ...++..+...+...|++++|...+++..+.... ++    ..++..+...|...|++++|...+++. 
T Consensus       211 ~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al  290 (411)
T 4a1s_A          211 KLMRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGDRAAERRANSNLGNSHIFLGQFEDAAEHYKRTL  290 (411)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHH
Confidence            31    1111 1235556666666777777777777766553100 01    125566667777777777777777665 


Q ss_pred             CCCc-------cHhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCC------CchHHHHHHHHHhccChHHHHHHHHHHH
Q 039362          360 PLEP-------TASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDH------DGRYVGLSNVYAIFKRWDEARTTREAME  426 (440)
Q Consensus       360 ~~~p-------~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~------~~~~~~l~~~~~~~g~~~~A~~~~~~~~  426 (440)
                      ...|       ...++..+...+...|++++|...++++++..+..      ..++..++.+|...|++++|.+.+++..
T Consensus       291 ~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al  370 (411)
T 4a1s_A          291 ALAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAIAQELGDRIGEARACWSLGNAHSAIGGHERALKYAEQHL  370 (411)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHH
Confidence            1111       13556667777777888888888888777754332      2266777777888888888888877776


Q ss_pred             hc
Q 039362          427 TR  428 (440)
Q Consensus       427 ~~  428 (440)
                      +.
T Consensus       371 ~~  372 (411)
T 4a1s_A          371 QL  372 (411)
T ss_dssp             HH
T ss_pred             HH
Confidence            53

>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=99.70  E-value=4.9e-15  Score=124.19  Aligned_cols=199  Identities=10%  Similarity=-0.040  Sum_probs=142.5

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCC-chhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHH
Q 039362          230 LPLQTSLIDMYAKCGAIKEALIVFHGVEKHQS-DVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSAC  308 (440)
Q Consensus       230 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~  308 (440)
                      ...+..+...+...|++++|...|+++.+..| +...+..+...+...|++++|.+.++++.+.. +.+...+..+...+
T Consensus        37 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~  115 (252)
T 2ho1_A           37 RDAYIQLGLGYLQRGNTEQAKVPLRKALEIDPSSADAHAALAVVFQTEMEPKLADEEYRKALASD-SRNARVLNNYGGFL  115 (252)
T ss_dssp             HHHHHHHHHHHHHTTCTGGGHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHH
Confidence            45566677777777888888887777766555 45667777777777788888888887777654 33556677777777


Q ss_pred             HcCCChHHHHHHHHHHhhcCCCC-CcchHHHHHHHHHhcCCHHHHHHHHhcC-CCCc-cHhHHHHHHHHHHhcCChhHHH
Q 039362          309 AHGGLVMEAWYFFKSLGKRGMVP-KSEHYACMVDALSRAGQVTEAYEFICQM-PLEP-TASMLGSLLTGCMNHGKLDLAE  385 (440)
Q Consensus       309 ~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~  385 (440)
                      ...|++++|..+++++.+.+..| +...+..+...+...|++++|.+.++++ ...| +...+..++..+...|++++|.
T Consensus       116 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~  195 (252)
T 2ho1_A          116 YEQKRYEEAYQRLLEASQDTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLNRNQPSVALEMADLLYKEREYVPAR  195 (252)
T ss_dssp             HHTTCHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHhHHHHHHHHHHHHHhCccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHcCCHHHHH
Confidence            77788888888877777632223 3455666777777778888887777776 3233 4566677777777778888888


Q ss_pred             HHHHHHHhcCCCCCchHHHHHHHHHhccChHHHHHHHHHHHhcC
Q 039362          386 IVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEARTTREAMETRG  429 (440)
Q Consensus       386 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  429 (440)
                      ..++++.+..|.+...+..++..+...|++++|.++++++.+..
T Consensus       196 ~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~  239 (252)
T 2ho1_A          196 QYYDLFAQGGGQNARSLLLGIRLAKVFEDRDTAASYGLQLKRLY  239 (252)
T ss_dssp             HHHHHHHTTSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHhCcCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC
Confidence            88888777777777777777777777788888888777776654

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.70  E-value=4.9e-15  Score=121.77  Aligned_cols=198  Identities=13%  Similarity=-0.032  Sum_probs=96.8

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCC-chhhHHHHHHHHH
Q 039362          196 VTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQS-DVLIWNAMIGGLA  274 (440)
Q Consensus       196 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~  274 (440)
                      ..+..+...+...|++++|...++.+.+.. +.+...+..+..+|...|++++|...++++....| +...+..+...+.
T Consensus         9 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~   87 (225)
T 2vq2_A            9 NIKTQLAMEYMRGQDYRQATASIEDALKSD-PKNELAWLVRAEIYQYLKVNDKAQESFRQALSIKPDSAEINNNYGWFLC   87 (225)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCChHHHHHHHHHHH
Confidence            344445555555555555555555555543 33444555555555555555555555555544433 3344444555555


Q ss_pred             hc-CChHHHHHHHHHHHHcCCCcc-HhhHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHH
Q 039362          275 MH-GFVKESLELFTEMQIVGITPD-EITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEA  352 (440)
Q Consensus       275 ~~-~~~~~a~~~~~~m~~~~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  352 (440)
                      .. |++++|...++++.+.+..|+ ...+..+...+...|++++|...++++.+..  |                     
T Consensus        88 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~--~---------------------  144 (225)
T 2vq2_A           88 GRLNRPAESMAYFDKALADPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAAQ--P---------------------  144 (225)
T ss_dssp             TTTCCHHHHHHHHHHHHTSTTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--T---------------------
T ss_pred             HhcCcHHHHHHHHHHHHcCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--C---------------------
Confidence            55 555555555555544111121 2344444444455555555555555544432  1                     


Q ss_pred             HHHHhcCCCCccHhHHHHHHHHHHhcCChhHHHHHHHHHHhcCC-CCCchHHHHHHHHHhccChHHHHHHHHHHHh
Q 039362          353 YEFICQMPLEPTASMLGSLLTGCMNHGKLDLAEIVGKKLVELQP-DHDGRYVGLSNVYAIFKRWDEARTTREAMET  427 (440)
Q Consensus       353 ~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  427 (440)
                                .+...+..++..+...|++++|...++++.+..| .++..+..++..+...|+.++|..+++.+.+
T Consensus       145 ----------~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  210 (225)
T 2vq2_A          145 ----------QFPPAFKELARTKMLAGQLGDADYYFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQLQA  210 (225)
T ss_dssp             ----------TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             ----------CCchHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Confidence                      1233444444455555555555555555555555 4444444444444555555555555554443

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.70  E-value=8.3e-16  Score=128.09  Aligned_cols=201  Identities=13%  Similarity=0.113  Sum_probs=160.3

Q ss_pred             CchhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCC-chhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHH
Q 039362          228 LTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQS-DVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLS  306 (440)
Q Consensus       228 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~  306 (440)
                      .....+..+...+...|++++|...|+++.+..| +...+..+...+...|++++|...++++.+.. +.+...+..+..
T Consensus        21 ~~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~   99 (243)
T 2q7f_A           21 MASMTGGQQMGRGSEFGDYEKAAEAFTKAIEENKEDAIPYINFANLLSSVNELERALAFYDKALELD-SSAATAYYGAGN   99 (243)
T ss_dssp             ---------------------CCTTHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CcchHHHHHHHH
Confidence            4456677888899999999999999999987766 57788889999999999999999999998874 456778888999


Q ss_pred             HHHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcC-CCCc-cHhHHHHHHHHHHhcCChhHH
Q 039362          307 ACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQM-PLEP-TASMLGSLLTGCMNHGKLDLA  384 (440)
Q Consensus       307 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a  384 (440)
                      .+...|++++|...++++.+.. +.+...+..+...+...|++++|...++++ ...| +...+..++..+...|++++|
T Consensus       100 ~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A  178 (243)
T 2q7f_A          100 VYVVKEMYKEAKDMFEKALRAG-MENGDLFYMLGTVLVKLEQPKLALPYLQRAVELNENDTEARFQFGMCLANEGMLDEA  178 (243)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHT-CCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCHHH
T ss_pred             HHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHcCCHHHH
Confidence            9999999999999999998864 336677888999999999999999999998 3333 567888899999999999999


Q ss_pred             HHHHHHHHhcCCCCCchHHHHHHHHHhccChHHHHHHHHHHHhcCC
Q 039362          385 EIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEARTTREAMETRGV  430 (440)
Q Consensus       385 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  430 (440)
                      +..++++.+..|.++.++..++.+|...|++++|.+.++++.+...
T Consensus       179 ~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~p  224 (243)
T 2q7f_A          179 LSQFAAVTEQDPGHADAFYNAGVTYAYKENREKALEMLDKAIDIQP  224 (243)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHHHHTTCTTHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHHhCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHccCc
Confidence            9999999999999999999999999999999999999999988654

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.69  E-value=1e-15  Score=134.12  Aligned_cols=266  Identities=15%  Similarity=0.059  Sum_probs=185.8

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCC----HHHHHHHHHHHHhcCChHHHHHHHHHHHHc----CC-CCchhhH
Q 039362          163 WSALIDGYVKCGDYKEALVIFEEMRDVGSKAN----EVTLVSVLCACAHLGALDQGRMMLRYMIDK----GL-SLTLPLQ  233 (440)
Q Consensus       163 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~-~~~~~~~  233 (440)
                      +......+...|++++|...|+++.+.. +.+    ...+..+...+...|++++|...+++..+.    +. +....++
T Consensus         8 l~~~g~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~   86 (338)
T 3ro2_A            8 LALEGERLCKSGDCRAGVSFFEAAVQVG-TEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKAS   86 (338)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-CSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcccccHHHHHHH
Confidence            4445566777788888888887776653 222    245666777777778888888777776433    11 1224566


Q ss_pred             HHHHHHHHhcCCHHHHHHHHhhhhhcC---Cc----hhhHHHHHHHHHhcCC--------------------hHHHHHHH
Q 039362          234 TSLIDMYAKCGAIKEALIVFHGVEKHQ---SD----VLIWNAMIGGLAMHGF--------------------VKESLELF  286 (440)
Q Consensus       234 ~~l~~~~~~~g~~~~A~~~~~~~~~~~---~~----~~~~~~l~~~~~~~~~--------------------~~~a~~~~  286 (440)
                      ..+...|...|++++|...+++..+..   ++    ..++..+...+...|+                    +++|...+
T Consensus        87 ~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A~~~~  166 (338)
T 3ro2_A           87 GNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNALQAAVDLY  166 (338)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSSSSSCC----CCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHccCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHcCcccccchhhhhhhhhhhHHHHHHHHHHHH
Confidence            777778888888888888887765431   12    2366777777788888                    88888887


Q ss_pred             HHHHHc----CCCc-cHhhHHHHHHHHHcCCChHHHHHHHHHHhhcCC-CCC----cchHHHHHHHHHhcCCHHHHHHHH
Q 039362          287 TEMQIV----GITP-DEITFLGLLSACAHGGLVMEAWYFFKSLGKRGM-VPK----SEHYACMVDALSRAGQVTEAYEFI  356 (440)
Q Consensus       287 ~~m~~~----~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~----~~~~~~l~~~~~~~~~~~~a~~~~  356 (440)
                      ++....    +..| ...++..+...+...|++++|...+++..+... .++    ..++..+...+...|++++|...+
T Consensus       167 ~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  246 (338)
T 3ro2_A          167 EENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYY  246 (338)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            775432    1111 134567777788888889998888888765410 011    236777888888999999998888


Q ss_pred             hcC-CCCc-------cHhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCC------CchHHHHHHHHHhccChHHHHHHH
Q 039362          357 CQM-PLEP-------TASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDH------DGRYVGLSNVYAIFKRWDEARTTR  422 (440)
Q Consensus       357 ~~~-~~~p-------~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~------~~~~~~l~~~~~~~g~~~~A~~~~  422 (440)
                      ++. .+.|       ...++..+...+...|++++|...++++.+..+..      ..++..++.+|...|++++|...+
T Consensus       247 ~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~  326 (338)
T 3ro2_A          247 KKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFA  326 (338)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             HHHHHHHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHH
Confidence            876 1111       14567788888999999999999999998865433      236788999999999999999999


Q ss_pred             HHHHhcC
Q 039362          423 EAMETRG  429 (440)
Q Consensus       423 ~~~~~~~  429 (440)
                      ++..+..
T Consensus       327 ~~a~~~~  333 (338)
T 3ro2_A          327 EKHLEIS  333 (338)
T ss_dssp             HHHHHC-
T ss_pred             HHHHHHH
Confidence            9988753

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.69  E-value=1.4e-15  Score=137.04  Aligned_cols=291  Identities=13%  Similarity=0.101  Sum_probs=177.5

Q ss_pred             hhHHHHHHHHHhcCChHHHHHHHhhCCC--C-c----hhhHHHHHHHHHhcCCHHHHHHHHHHHHhc----CCCC-CHHH
Q 039362          130 VSWNSMLDGYAKCGEMNMARQVFELMPE--R-N----VVSWSALIDGYVKCGDYKEALVIFEEMRDV----GSKA-NEVT  197 (440)
Q Consensus       130 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~-~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~  197 (440)
                      ..+......+...|++++|...|+++.+  | +    ...+..+...+...|++++|...+++....    +..| ....
T Consensus        10 ~~l~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~   89 (406)
T 3sf4_A           10 LELALEGERLCKSGDCRAGVSFFEAAVQVGTEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKA   89 (406)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccccHHHHHH
Confidence            3455566677777888888877777653  2 2    245667777777778888887777765432    1111 1345


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHcCCC-C----chhhHHHHHHHHHhcCC--------------------HHHHHHH
Q 039362          198 LVSVLCACAHLGALDQGRMMLRYMIDKGLS-L----TLPLQTSLIDMYAKCGA--------------------IKEALIV  252 (440)
Q Consensus       198 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~----~~~~~~~l~~~~~~~g~--------------------~~~A~~~  252 (440)
                      +..+...+...|++++|...+++..+.... +    ...++..+...|...|+                    +++|...
T Consensus        90 ~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~~A~~~  169 (406)
T 3sf4_A           90 SGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDALQAAVDF  169 (406)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHTCC-------CCCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHcCCcccccccchhhhhhhhHHHHHHHHHHH
Confidence            566666777777777777777776543210 1    13356667777777777                    7777777


Q ss_pred             Hhhhhhc---CC----chhhHHHHHHHHHhcCChHHHHHHHHHHHHcCC-Ccc----HhhHHHHHHHHHcCCChHHHHHH
Q 039362          253 FHGVEKH---QS----DVLIWNAMIGGLAMHGFVKESLELFTEMQIVGI-TPD----EITFLGLLSACAHGGLVMEAWYF  320 (440)
Q Consensus       253 ~~~~~~~---~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~-~p~----~~~~~~l~~~~~~~~~~~~a~~~  320 (440)
                      +.+....   .+    ....+..+...+...|++++|...+++..+... .++    ..++..+...+...|++++|...
T Consensus       170 ~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~  249 (406)
T 3sf4_A          170 YEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEY  249 (406)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHH
Confidence            7665432   11    133566667777777777777777777654310 111    12566666677777777777777


Q ss_pred             HHHHhhcCC-CCC----cchHHHHHHHHHhcCCHHHHHHHHhcC-CC------Cc-cHhHHHHHHHHHHhcCChhHHHHH
Q 039362          321 FKSLGKRGM-VPK----SEHYACMVDALSRAGQVTEAYEFICQM-PL------EP-TASMLGSLLTGCMNHGKLDLAEIV  387 (440)
Q Consensus       321 ~~~~~~~~~-~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~------~p-~~~~~~~l~~~~~~~g~~~~a~~~  387 (440)
                      +++..+... .++    ..++..+...|...|++++|.+.+++. .+      .+ ...++..+...+...|++++|...
T Consensus       250 ~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~  329 (406)
T 3sf4_A          250 YKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELNDRIGEGRACWSLGNAYTALGNHDQAMHF  329 (406)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHH
T ss_pred             HHHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCCHHHHHHH
Confidence            777665310 011    335566677777777777777777665 11      11 134566666777777777777777


Q ss_pred             HHHHHhcCCCCCc------hHHHHHHHHHhccChHHHHH
Q 039362          388 GKKLVELQPDHDG------RYVGLSNVYAIFKRWDEART  420 (440)
Q Consensus       388 ~~~~~~~~~~~~~------~~~~l~~~~~~~g~~~~A~~  420 (440)
                      ++++.+..+....      ++..++.++...|+...+..
T Consensus       330 ~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~  368 (406)
T 3sf4_A          330 AEKHLEISREVGDKSGELTARLNLSDLQMVLGLSYSTNN  368 (406)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHTTSCC--
T ss_pred             HHHHHHHHHHhcCCcchhHHHHHHHHHHHHhhHhHHHHH
Confidence            7777777666642      34555566666665554433

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.68  E-value=1.3e-14  Score=119.22  Aligned_cols=198  Identities=15%  Similarity=0.076  Sum_probs=156.5

Q ss_pred             chhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHH
Q 039362          159 NVVSWSALIDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLID  238 (440)
Q Consensus       159 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  238 (440)
                      +...+..+...+...|++++|.+.++++.... +.+...+..+..++...|++++|...++++.+.. +.+..++..++.
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            46678889999999999999999999998874 4567788889999999999999999999999876 667888999999


Q ss_pred             HHHhc-CCHHHHHHHHhhhhh--cCC-chhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCCh
Q 039362          239 MYAKC-GAIKEALIVFHGVEK--HQS-DVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLV  314 (440)
Q Consensus       239 ~~~~~-g~~~~A~~~~~~~~~--~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~  314 (440)
                      ++... |++++|...++++.+  ..| +...+..+...+...|++++|...++++.+.. +.+...+..+...+...|++
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 999999999999987  334 35778889999999999999999999998764 44566777888888888888


Q ss_pred             HHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcC
Q 039362          315 MEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQM  359 (440)
Q Consensus       315 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  359 (440)
                      ++|...++++.+.....+...+..+...+...|+.++|..+++.+
T Consensus       164 ~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~  208 (225)
T 2vq2_A          164 GDADYYFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQL  208 (225)
T ss_dssp             HHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHH
Confidence            888888888776431123333444444444444444444444443

>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=99.65  E-value=7.6e-13  Score=124.52  Aligned_cols=405  Identities=8%  Similarity=-0.005  Sum_probs=279.5

Q ss_pred             CCChHHHHHHHHHHHccCChhhHHHHHHHHHHcCCCCCcchHHHHHHHhhchhc---HHHHHHHHHHHHHcCC-CCcHHH
Q 039362           25 NPRIFYWNTVIRGYSKSKNPNKSISLFVKMLRAGVSPDHLTYPFLAKASGRLAK---RELAVAVHAQIAKTGY-ESDLFI  100 (440)
Q Consensus        25 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~~-~~~~~~  100 (440)
                      +.|..+|..++..+.+.+.++.+..+|+.+... .+.....|...+..-.+.++   ++.+..+|++.+...+ +|++..
T Consensus        63 p~d~~~W~~yi~~~~~~~~~~~aR~vyEraL~~-fP~~~~lW~~Yi~~E~~~~~~~~~~~v~~lfeRal~~~~~~~sv~L  141 (679)
T 4e6h_A           63 PTDIFLYVKLLKHHVSLKQWKQVYETFDKLHDR-FPLMANIWCMRLSLEFDKMEELDAAVIEPVLARCLSKELGNNDLSL  141 (679)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHTC--CCCHHHHHHHHHHHTCSSSCCCCHHH
T ss_pred             cCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHH-CCCCHHHHHHHHHHHHhhCCcchHHHHHHHHHHHHHhcCCCCCHHH
Confidence            568889999999999999999999999999986 45566778888888888888   9999999999988642 378888


Q ss_pred             HHHHHHHHHhcCCH--------HHHHHHhhCCC------CC-chhhHHHHHHHHH---------hcCChHHHHHHHhhCC
Q 039362          101 SNSLIHMYGSCGDI--------VYAREVFDGMP------TK-MSVSWNSMLDGYA---------KCGEMNMARQVFELMP  156 (440)
Q Consensus       101 ~~~l~~~~~~~g~~--------~~a~~~~~~~~------~~-~~~~~~~l~~~~~---------~~~~~~~a~~~~~~~~  156 (440)
                      |...+....+.++.        +...++|+...      ++ +...|...+....         ..++++.+.++|+++.
T Consensus       142 W~~Yl~f~~~~~~~~~~~~~~r~~vr~~FErAl~~vG~~d~~s~~iW~~Yi~f~~~~~~~~~~eeq~~~~~~R~iy~raL  221 (679)
T 4e6h_A          142 WLSYITYVRKKNDIITGGEEARNIVIQAFQVVVDKCAIFEPKSIQFWNEYLHFLEHWKPVNKFEEQQRVQYIRKLYKTLL  221 (679)
T ss_dssp             HHHHHHHHHHHSCSTTTHHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHTCCCCSHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHhccccCcHHHHhHHHHHHHHHHHHH
Confidence            88887766665543        33446666422      22 3456777766543         2345788999999887


Q ss_pred             C-Cc---hhhHH---HHHHHH----------HhcCCHHHHHHHHHHHHh--cCC----C-----------C-----CH--
Q 039362          157 E-RN---VVSWS---ALIDGY----------VKCGDYKEALVIFEEMRD--VGS----K-----------A-----NE--  195 (440)
Q Consensus       157 ~-~~---~~~~~---~l~~~~----------~~~~~~~~a~~~~~~~~~--~~~----~-----------~-----~~--  195 (440)
                      . |.   ..+|.   .+....          -...+++.|...+.++..  .++    +           |     +.  
T Consensus       222 ~iP~~~~~~~w~~Y~~fe~~~~~~~a~~~~~e~~~~y~~Ar~~~~e~~~~~~~l~r~~p~~~~~~~~~~~p~~~~~~~~q  301 (679)
T 4e6h_A          222 CQPMDCLESMWQRYTQWEQDVNQLTARRHIGELSAQYMNARSLYQDWLNITKGLKRNLPITLNQATESNLPKPNEYDVQQ  301 (679)
T ss_dssp             TSCCSSHHHHHHHHHHHHHHHCTTTHHHHHHHHHHHHHHHHHHHHHHHHHTTTCCCCCCSSSTTCCTTTSCCTTCCCHHH
T ss_pred             hCccHHHHHHHHHHHHHHHhcCcchHHHHHHHhhHHHHHHHHHHHHHHHHHHhHhhccccccccchhccCCCCchhHHHH
Confidence            5 31   12222   221111          011234445555554321  111    1           1     01  


Q ss_pred             -HHHHHHHHHHHhcC-------ChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHH-HHHhhhhhcCC-chhh
Q 039362          196 -VTLVSVLCACAHLG-------ALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEAL-IVFHGVEKHQS-DVLI  265 (440)
Q Consensus       196 -~~~~~l~~~~~~~~-------~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~-~~~~~~~~~~~-~~~~  265 (440)
                       ..|...+.---..+       ..+.+..+|++.+... +....+|...+..+...|+.++|. .+|++.....| +...
T Consensus       302 l~lW~~yi~fEk~~~~~l~~~~~~~Rv~~~Ye~aL~~~-p~~~~lW~~ya~~~~~~~~~~~a~r~il~rAi~~~P~s~~L  380 (679)
T 4e6h_A          302 LLIWLEWIRWESDNKLELSDDLHKARMTYVYMQAAQHV-CFAPEIWFNMANYQGEKNTDSTVITKYLKLGQQCIPNSAVL  380 (679)
T ss_dssp             HHHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHHT-TTCHHHHHHHHHHHHHHSCCTTHHHHHHHHHHHHCTTCHHH
T ss_pred             HHHHHHHHHHHHhCCccccchhhHHHHHHHHHHHHHHc-CCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHhCCCCHHH
Confidence             22333332222211       1234567788888765 678888998999899999999996 99999887766 4556


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHcC---------CCcc------------HhhHHHHHHHHHcCCChHHHHHHHHHH
Q 039362          266 WNAMIGGLAMHGFVKESLELFTEMQIVG---------ITPD------------EITFLGLLSACAHGGLVMEAWYFFKSL  324 (440)
Q Consensus       266 ~~~l~~~~~~~~~~~~a~~~~~~m~~~~---------~~p~------------~~~~~~l~~~~~~~~~~~~a~~~~~~~  324 (440)
                      |-..+....+.|++++|.++|+.+....         -.|+            ...|...+....+.|+.+.|..+|.++
T Consensus       381 wl~~a~~ee~~~~~e~aR~iyek~l~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~y~~~erR~~~l~~AR~vf~~A  460 (679)
T 4e6h_A          381 AFSLSEQYELNTKIPEIETTILSCIDRIHLDLAALMEDDPTNESAINQLKSKLTYVYCVYMNTMKRIQGLAASRKIFGKC  460 (679)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhhhhhccCcchhhhhhhccchHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            7778888889999999999999987641         0131            235777777777889999999999999


Q ss_pred             hhcCCCCCcchHHHHHHHHHhc-CCHHHHHHHHhcC-CCCc-cHhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCC---C
Q 039362          325 GKRGMVPKSEHYACMVDALSRA-GQVTEAYEFICQM-PLEP-TASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPD---H  398 (440)
Q Consensus       325 ~~~~~~~~~~~~~~l~~~~~~~-~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~---~  398 (440)
                      .+....+....|...+..-.+. ++.+.|.++|+.. ...| +...|...+......|+.+.|..+|++++...|+   .
T Consensus       461 ~~~~~~~~~~lyi~~A~lE~~~~~d~e~Ar~ife~~Lk~~p~~~~~w~~y~~fe~~~~~~~~AR~lferal~~~~~~~~~  540 (679)
T 4e6h_A          461 RRLKKLVTPDIYLENAYIEYHISKDTKTACKVLELGLKYFATDGEYINKYLDFLIYVNEESQVKSLFESSIDKISDSHLL  540 (679)
T ss_dssp             HHTGGGSCTHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHTTTSSSTTHH
T ss_pred             HHhcCCCChHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHCCCchHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCHHHH
Confidence            8751112334454444434444 4589999999987 3233 4566678888888899999999999999998874   3


Q ss_pred             CchHHHHHHHHHhccChHHHHHHHHHHHhcCCc
Q 039362          399 DGRYVGLSNVYAIFKRWDEARTTREAMETRGVK  431 (440)
Q Consensus       399 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  431 (440)
                      ...|..++..-.+.|+.+.+.++.+++.+..+.
T Consensus       541 ~~lw~~~~~fE~~~G~~~~~~~v~~R~~~~~P~  573 (679)
T 4e6h_A          541 KMIFQKVIFFESKVGSLNSVRTLEKRFFEKFPE  573 (679)
T ss_dssp             HHHHHHHHHHHHHTCCSHHHHHHHHHHHHHSTT
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC
Confidence            346888888888999999999999999887643

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.65  E-value=2.7e-15  Score=137.46  Aligned_cols=210  Identities=10%  Similarity=0.016  Sum_probs=152.6

Q ss_pred             hHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCH-HHHHHHHhhhhhcCCc-hhhHHHHHHHHHhcCChHHHHHHHHH
Q 039362          211 LDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAI-KEALIVFHGVEKHQSD-VLIWNAMIGGLAMHGFVKESLELFTE  288 (440)
Q Consensus       211 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~-~~A~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~  288 (440)
                      ++++...++...... +.+...+..+..+|...|++ ++|+..|+++.+..|+ ...|..+...|...|++++|.+.|++
T Consensus        84 ~~~al~~l~~~~~~~-~~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~  162 (474)
T 4abn_A           84 MEKTLQQMEEVLGSA-QVEAQALMLKGKALNVTPDYSPEAEVLLSKAVKLEPELVEAWNQLGEVYWKKGDVTSAHTCFSG  162 (474)
T ss_dssp             HHHHHHHHHHHHTTC-CCCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccC-chhHHHHHHHHHHHHhccccHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            344444555444332 34556666666666666666 6666666666655553 55666777777777777777777777


Q ss_pred             HHHcCCCccHhhHHHHHHHHHcC---------CChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhc--------CCHHH
Q 039362          289 MQIVGITPDEITFLGLLSACAHG---------GLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRA--------GQVTE  351 (440)
Q Consensus       289 m~~~~~~p~~~~~~~l~~~~~~~---------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--------~~~~~  351 (440)
                      ..+.  .|+...+..+...+...         |++++|+..++++.+.. +.+...|..+..+|...        |++++
T Consensus       163 al~~--~p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~~~~g~~~~  239 (474)
T 4abn_A          163 ALTH--CKNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQMD-VLDGRSWYILGNAYLSLYFNTGQNPKISQQ  239 (474)
T ss_dssp             HHTT--CCCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHTTCCHHHHHH
T ss_pred             HHhh--CCCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHhhccccchHHH
Confidence            6654  35556666667777776         77778888877777753 22456677777777777        78888


Q ss_pred             HHHHHhcC-CCCc----cHhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCCchHHHHHHHHHhccChHHHHHHHHH
Q 039362          352 AYEFICQM-PLEP----TASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEARTTREA  424 (440)
Q Consensus       352 a~~~~~~~-~~~p----~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  424 (440)
                      |++.|++. .+.|    +...|..+..++...|++++|...|+++.+.+|.++..+..++.++...|++++|.+.+++
T Consensus       240 A~~~~~~al~~~p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~a~~~l~~~~~~lg~~~eAi~~~~~  317 (474)
T 4abn_A          240 ALSAYAQAEKVDRKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALDPAWPEPQQREQQLLEFLSRLTSLLESKGK  317 (474)
T ss_dssp             HHHHHHHHHHHCGGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHHHHHTTT
T ss_pred             HHHHHHHHHHhCCCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            88888887 4455    5678889999999999999999999999999999999999999999999999999875543

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.64  E-value=4.1e-15  Score=134.02  Aligned_cols=273  Identities=13%  Similarity=0.039  Sum_probs=127.7

Q ss_pred             ChHHHHHHHHHHHccCChhhHHHHHHHHHHcCCCCCc-----chHHHHHHHhhchhcHHHHHHHHHHHHHc----CCC-C
Q 039362           27 RIFYWNTVIRGYSKSKNPNKSISLFVKMLRAGVSPDH-----LTYPFLAKASGRLAKRELAVAVHAQIAKT----GYE-S   96 (440)
Q Consensus        27 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~-~   96 (440)
                      ....+......+...|++++|+..|+++.+.+  |+.     ..+..+...+...|++++|...++++.+.    +.. .
T Consensus         8 ~~~~l~~~g~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~   85 (406)
T 3sf4_A            8 SCLELALEGERLCKSGDCRAGVSFFEAAVQVG--TEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLG   85 (406)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHHHHHhccHHHHHHHHHHHHhcC--cccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccccHH
Confidence            34455566666677777777777777766642  322     34556666666667777777666665432    111 1


Q ss_pred             cHHHHHHHHHHHHhcCCHHHHHHHhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHhhCCC--CchhhHHHHHHHHHhcC
Q 039362           97 DLFISNSLIHMYGSCGDIVYAREVFDGMPTKMSVSWNSMLDGYAKCGEMNMARQVFELMPE--RNVVSWSALIDGYVKCG  174 (440)
Q Consensus        97 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~l~~~~~~~~  174 (440)
                      ...++..+...+...|++++|...+++..+.                        ......  ....++..+...|...|
T Consensus        86 ~~~~~~~la~~~~~~g~~~~A~~~~~~al~~------------------------~~~~~~~~~~~~~~~~l~~~~~~~g  141 (406)
T 3sf4_A           86 EAKASGNLGNTLKVLGNFDEAIVCCQRHLDI------------------------SRELNDKVGEARALYNLGNVYHAKG  141 (406)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH------------------------HHHHTCHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH------------------------HHhcccccchHHHHHHHHHHHHHcC
Confidence            1234444555555555555555544433210                        000000  01234555555555555


Q ss_pred             C--------------------HHHHHHHHHHHHhc----CCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCC-C
Q 039362          175 D--------------------YKEALVIFEEMRDV----GSKA-NEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLS-L  228 (440)
Q Consensus       175 ~--------------------~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~  228 (440)
                      +                    +++|...+++....    +..| ...++..+...+...|++++|...+++..+.... +
T Consensus       142 ~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~  221 (406)
T 3sf4_A          142 KSFGCPGPQDVGEFPEEVRDALQAAVDFYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFG  221 (406)
T ss_dssp             HTCC-------CCCCHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTT
T ss_pred             CcccccccchhhhhhhhHHHHHHHHHHHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcC
Confidence            5                    55555555544321    1011 1223444555555555555555555554432100 0


Q ss_pred             ----chhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCC---c----hhhHHHHHHHHHhcCChHHHHHHHHHHHHcC----
Q 039362          229 ----TLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQS---D----VLIWNAMIGGLAMHGFVKESLELFTEMQIVG----  293 (440)
Q Consensus       229 ----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~---~----~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~----  293 (440)
                          ...++..+..+|...|++++|...+++.....+   +    ..++..+...+...|++++|...+++..+..    
T Consensus       222 ~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~  301 (406)
T 3sf4_A          222 DKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELN  301 (406)
T ss_dssp             CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTT
T ss_pred             CcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHhcC
Confidence                112444455555555555555555555443211   0    2334444455555555555555555443221    


Q ss_pred             CCcc-HhhHHHHHHHHHcCCChHHHHHHHHHHh
Q 039362          294 ITPD-EITFLGLLSACAHGGLVMEAWYFFKSLG  325 (440)
Q Consensus       294 ~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~  325 (440)
                      ..+. ..++..+...+...|++++|...+++..
T Consensus       302 ~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al  334 (406)
T 3sf4_A          302 DRIGEGRACWSLGNAYTALGNHDQAMHFAEKHL  334 (406)
T ss_dssp             CHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            0000 2233444444444455555554444443

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.64  E-value=1.3e-14  Score=129.68  Aligned_cols=195  Identities=9%  Similarity=-0.005  Sum_probs=88.4

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHhhhhhc---CC-----chhhHHHHHHHHHhcCChHHHHHHHHHHHHc----CCCc-cH
Q 039362          232 LQTSLIDMYAKCGAIKEALIVFHGVEKH---QS-----DVLIWNAMIGGLAMHGFVKESLELFTEMQIV----GITP-DE  298 (440)
Q Consensus       232 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~---~~-----~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~----~~~p-~~  298 (440)
                      ++..+..+|...|++++|...+.+..+.   .+     ...+++.+...|...|++++|...+++..+.    +-.+ ..
T Consensus       145 ~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~  224 (383)
T 3ulq_A          145 FFFKMSESYYYMKQTYFSMDYARQAYEIYKEHEAYNIRLLQCHSLFATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMG  224 (383)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTCSTTHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCccchHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHHH
Confidence            3444444444555555554444444322   01     1123444445555555555555555544322    0000 01


Q ss_pred             hhHHHHHHHHHcCCChHHHHHHHHHHhhc----CC-CCCcchHHHHHHHHHhcCCHHHHHHHHhcC-CC-----Cc-cHh
Q 039362          299 ITFLGLLSACAHGGLVMEAWYFFKSLGKR----GM-VPKSEHYACMVDALSRAGQVTEAYEFICQM-PL-----EP-TAS  366 (440)
Q Consensus       299 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~-----~p-~~~  366 (440)
                      .++..+...+...|++++|...+++..+.    +. +....++..+...|.+.|++++|.+.+++. .+     .| ...
T Consensus       225 ~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~  304 (383)
T 3ulq_A          225 RTLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNILPSLPQAYFLITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLS  304 (383)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhccchhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHH
Confidence            23444555555555555555555554442    11 112333445555555555555555555544 10     11 112


Q ss_pred             HHHHHHHHHHhcCC---hhHHHHHHHHHHhcCCCCCchHHHHHHHHHhccChHHHHHHHHHHHh
Q 039362          367 MLGSLLTGCMNHGK---LDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEARTTREAMET  427 (440)
Q Consensus       367 ~~~~l~~~~~~~g~---~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  427 (440)
                      .+..+...+...|+   .++|+.++++. ...|.....+..++..|...|++++|.+.+++..+
T Consensus       305 ~~~~l~~~~~~~~~~~~~~~al~~~~~~-~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~al~  367 (383)
T 3ulq_A          305 EFEFLKSLYLSGPDEEAIQGFFDFLESK-MLYADLEDFAIDVAKYYHERKNFQKASAYFLKVEQ  367 (383)
T ss_dssp             HHHHHHHHHTSSCCHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCCcHHHHHHHHHHHHHC-cCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            23444455555555   44455554443 11122223455566666666666666666666554

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.63  E-value=4.4e-14  Score=126.24  Aligned_cols=231  Identities=8%  Similarity=-0.022  Sum_probs=174.8

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhc----CCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCC------CCchhhH
Q 039362          165 ALIDGYVKCGDYKEALVIFEEMRDV----GSKA-NEVTLVSVLCACAHLGALDQGRMMLRYMIDKGL------SLTLPLQ  233 (440)
Q Consensus       165 ~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~------~~~~~~~  233 (440)
                      .....+...|++++|...+++....    +-.+ ...++..+..++...|+++.|...+++..+...      +....++
T Consensus       108 ~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  187 (383)
T 3ulq_A          108 FRGMYELDQREYLSAIKFFKKAESKLIFVKDRIEKAEFFFKMSESYYYMKQTYFSMDYARQAYEIYKEHEAYNIRLLQCH  187 (383)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTCSTTHHHHHHHH
T ss_pred             HHHHHHHHhcCHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCccchHHHHHHH
Confidence            3556677888888888888887653    1111 235677788888888999998888888765421      1123567


Q ss_pred             HHHHHHHHhcCCHHHHHHHHhhhhhcCC---c----hhhHHHHHHHHHhcCChHHHHHHHHHHHHc----CC-CccHhhH
Q 039362          234 TSLIDMYAKCGAIKEALIVFHGVEKHQS---D----VLIWNAMIGGLAMHGFVKESLELFTEMQIV----GI-TPDEITF  301 (440)
Q Consensus       234 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~---~----~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~----~~-~p~~~~~  301 (440)
                      ..+..+|...|++++|...|++..+..+   +    ..++..+...|...|++++|...+++..+.    +. +....++
T Consensus       188 ~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~  267 (383)
T 3ulq_A          188 SLFATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNILPSLPQAY  267 (383)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGHHHHH
T ss_pred             HHHHHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhccchhHHHHH
Confidence            7888899999999999999988775422   1    247788889999999999999999988762    32 3345678


Q ss_pred             HHHHHHHHcCCChHHHHHHHHHHhhc----CCCCCcchHHHHHHHHHhcCC---HHHHHHHHhcCCCCccH-hHHHHHHH
Q 039362          302 LGLLSACAHGGLVMEAWYFFKSLGKR----GMVPKSEHYACMVDALSRAGQ---VTEAYEFICQMPLEPTA-SMLGSLLT  373 (440)
Q Consensus       302 ~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~p~~-~~~~~l~~  373 (440)
                      ..+...+.+.|++++|...+++..+.    +-+.....+..+...|...|+   +++|+.++++.+..|+. ..+..+..
T Consensus       268 ~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~~~~~~~~~~~~~la~  347 (383)
T 3ulq_A          268 FLITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLESKMLYADLEDFAIDVAK  347 (383)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCcCHHHHHHHHHHHHH
Confidence            88899999999999999999988764    111112235667888888998   89999999999655544 56778899


Q ss_pred             HHHhcCChhHHHHHHHHHHhcC
Q 039362          374 GCMNHGKLDLAEIVGKKLVELQ  395 (440)
Q Consensus       374 ~~~~~g~~~~a~~~~~~~~~~~  395 (440)
                      .|...|++++|...++++.+..
T Consensus       348 ~y~~~g~~~~A~~~~~~al~~~  369 (383)
T 3ulq_A          348 YYHERKNFQKASAYFLKVEQVR  369 (383)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHHH
Confidence            9999999999999999998754

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.63  E-value=3.9e-14  Score=112.44  Aligned_cols=163  Identities=16%  Similarity=0.067  Sum_probs=89.3

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHH
Q 039362          265 IWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALS  344 (440)
Q Consensus       265 ~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  344 (440)
                      .|..+...|...|++++|++.|++..+.. +-+..++..+..++.+.|++++|...+..+.... +.+...+..+...+.
T Consensus         7 iy~~lG~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~   84 (184)
T 3vtx_A            7 IYMDIGDKKRTKGDFDGAIRAYKKVLKAD-PNNVETLLKLGKTYMDIGLPNDAIESLKKFVVLD-TTSAEAYYILGSANF   84 (184)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-chhHHHHHHHHHHHH
Confidence            34444444444444444444444444332 2233344444444444444444444444444432 112333344444455


Q ss_pred             hcCCHHHHHHHHhcC-CCCc-cHhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCCchHHHHHHHHHhccChHHHHHHH
Q 039362          345 RAGQVTEAYEFICQM-PLEP-TASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEARTTR  422 (440)
Q Consensus       345 ~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  422 (440)
                      ..++++.|.+.+++. ...| +...+..+...+...|++++|++.|+++++.+|.++.++..++.+|.+.|++++|.+.|
T Consensus        85 ~~~~~~~a~~~~~~a~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~  164 (184)
T 3vtx_A           85 MIDEKQAAIDALQRAIALNTVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIKPGFIRAYQSIGLAYEGKGLRDEAVKYF  164 (184)
T ss_dssp             HTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHhCccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhcchhhhHHHHHHHHHHHCCCHHHHHHHH
Confidence            555555555555544 2222 34555666667777777777777777777777777777777777777777777777777


Q ss_pred             HHHHhcC
Q 039362          423 EAMETRG  429 (440)
Q Consensus       423 ~~~~~~~  429 (440)
                      ++.++..
T Consensus       165 ~~al~~~  171 (184)
T 3vtx_A          165 KKALEKE  171 (184)
T ss_dssp             HHHHHTT
T ss_pred             HHHHhCC
Confidence            7776654

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.62  E-value=5.3e-13  Score=115.21  Aligned_cols=221  Identities=12%  Similarity=0.020  Sum_probs=162.7

Q ss_pred             HHHHHHHHHHHhcCCCCCHHHHHHHHHHHH-------hcCCh-------HHHHHHHHHHHHcCCCCchhhHHHHHHHHHh
Q 039362          177 KEALVIFEEMRDVGSKANEVTLVSVLCACA-------HLGAL-------DQGRMMLRYMIDKGLSLTLPLQTSLIDMYAK  242 (440)
Q Consensus       177 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~-------~~~~~-------~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  242 (440)
                      ++|..+|++..... +.+...|..++..+.       ..|++       ++|..+|++..+.-.+.+...|..++..+.+
T Consensus        33 ~~a~~~~~~al~~~-p~~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~~~~rAl~~~~p~~~~~~~~~~~~~~~  111 (308)
T 2ond_A           33 KRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEES  111 (308)
T ss_dssp             HHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHc-CCCHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHHHHHHHHHHhCcccHHHHHHHHHHHHh
Confidence            67777888777653 445556666665554       34775       8888888888874225566788888888888


Q ss_pred             cCCHHHHHHHHhhhhhcCCc-hh-hHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHH-cCCChHHHHH
Q 039362          243 CGAIKEALIVFHGVEKHQSD-VL-IWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACA-HGGLVMEAWY  319 (440)
Q Consensus       243 ~g~~~~A~~~~~~~~~~~~~-~~-~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~-~~~~~~~a~~  319 (440)
                      .|++++|..+|+++.+..|+ .. .|..++..+.+.|++++|..+|++..+.. +++...|........ ..|+.++|..
T Consensus       112 ~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~~a~~~~~~~~~~~~A~~  190 (308)
T 2ond_A          112 RMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA-RTRHHVYVTAALMEYYCSKDKSVAFK  190 (308)
T ss_dssp             TTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTST-TCCTHHHHHHHHHHHHTSCCHHHHHH
T ss_pred             cCCHHHHHHHHHHHHhccccCccHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHcCCHHHHHH
Confidence            88999999999888877664 33 78888888888889999999998888754 333344443333222 3688999999


Q ss_pred             HHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcC-C---CCcc--HhHHHHHHHHHHhcCChhHHHHHHHHHHh
Q 039362          320 FFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQM-P---LEPT--ASMLGSLLTGCMNHGKLDLAEIVGKKLVE  393 (440)
Q Consensus       320 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~---~~p~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  393 (440)
                      +|++..+.. +.+...|..++..+.+.|++++|..+|++. .   +.|+  ...|..++....+.|+.+.|..+++++.+
T Consensus       191 ~~~~al~~~-p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~~~~g~~~~a~~~~~~a~~  269 (308)
T 2ond_A          191 IFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRFT  269 (308)
T ss_dssp             HHHHHHHHH-TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            998888753 225667788888888889999999998887 2   3553  46778888888888999999999999998


Q ss_pred             cCCCCCc
Q 039362          394 LQPDHDG  400 (440)
Q Consensus       394 ~~~~~~~  400 (440)
                      ..|.+..
T Consensus       270 ~~p~~~~  276 (308)
T 2ond_A          270 AFREEYE  276 (308)
T ss_dssp             HTTTTTS
T ss_pred             Hcccccc
Confidence            8887654

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.61  E-value=3.6e-14  Score=128.13  Aligned_cols=93  Identities=6%  Similarity=-0.058  Sum_probs=40.1

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHcCCC-Cc----hhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCC-------chh
Q 039362          197 TLVSVLCACAHLGALDQGRMMLRYMIDKGLS-LT----LPLQTSLIDMYAKCGAIKEALIVFHGVEKHQS-------DVL  264 (440)
Q Consensus       197 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-------~~~  264 (440)
                      .+..+...+...|++++|...+++..+.... .+    ...+..+..+|...|++++|...|++.....+       ...
T Consensus       225 ~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~  304 (411)
T 4a1s_A          225 ACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGDRAAERRANSNLGNSHIFLGQFEDAAEHYKRTLALAVELGEREVEAQ  304 (411)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCHHHHHH
Confidence            3444444455555555555555544332100 00    11344444445555555555555544432211       123


Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHH
Q 039362          265 IWNAMIGGLAMHGFVKESLELFTEM  289 (440)
Q Consensus       265 ~~~~l~~~~~~~~~~~~a~~~~~~m  289 (440)
                      .+..+...+...|++++|...+++.
T Consensus       305 ~~~~la~~~~~~g~~~~A~~~~~~a  329 (411)
T 4a1s_A          305 SCYSLGNTYTLLHEFNTAIEYHNRH  329 (411)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            3444444444445555554444444

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.61  E-value=1.6e-14  Score=126.34  Aligned_cols=272  Identities=13%  Similarity=0.051  Sum_probs=164.3

Q ss_pred             HHHHHHHHHHccCChhhHHHHHHHHHHcCCCCCc-----chHHHHHHHhhchhcHHHHHHHHHHHHHc----CCC-CcHH
Q 039362           30 YWNTVIRGYSKSKNPNKSISLFVKMLRAGVSPDH-----LTYPFLAKASGRLAKRELAVAVHAQIAKT----GYE-SDLF   99 (440)
Q Consensus        30 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~-~~~~   99 (440)
                      .+......+...|++++|+..|+++.+..  |+.     ..+..+...+...|++++|.+.+++..+.    +.. ....
T Consensus         7 ~l~~~g~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~   84 (338)
T 3ro2_A            7 ELALEGERLCKSGDCRAGVSFFEAAVQVG--TEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAK   84 (338)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHhhC--cccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcccccHHHHH
Confidence            44555667788888888888888887753  332     45667777788888888888888776543    111 1234


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHhhCCC--CchhhHHHHHHHHHhcCC--
Q 039362          100 ISNSLIHMYGSCGDIVYAREVFDGMPTKMSVSWNSMLDGYAKCGEMNMARQVFELMPE--RNVVSWSALIDGYVKCGD--  175 (440)
Q Consensus       100 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~l~~~~~~~~~--  175 (440)
                      ++..+...+...|++++|...+++..+                        +......  ....++..+...+...|+  
T Consensus        85 ~~~~l~~~~~~~g~~~~A~~~~~~al~------------------------~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  140 (338)
T 3ro2_A           85 ASGNLGNTLKVLGNFDEAIVCCQRHLD------------------------ISRELNDKVGEARALYNLGNVYHAKGKSF  140 (338)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHH------------------------HHHHTTCHHHHHHHHHHHHHHHHHHHHTS
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHH------------------------HHHHhcCchHHHHHHHHHHHHHHHcCccc
Confidence            566666677777777777766654432                        0011000  012244455555555555  


Q ss_pred             ------------------HHHHHHHHHHHHhc----CCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCC-----C
Q 039362          176 ------------------YKEALVIFEEMRDV----GSKA-NEVTLVSVLCACAHLGALDQGRMMLRYMIDKGL-----S  227 (440)
Q Consensus       176 ------------------~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-----~  227 (440)
                                        +++|...+++....    +..+ ....+..+...+...|++++|...+++..+...     .
T Consensus       141 ~~~~~~~~~~~~~~a~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~  220 (338)
T 3ro2_A          141 GCPGPQDTGEFPEDVRNALQAAVDLYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKA  220 (338)
T ss_dssp             SSSSCC----CCHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHH
T ss_pred             ccchhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCChH
Confidence                              56665555554321    1111 123455566666677777777777766654310     1


Q ss_pred             CchhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCC---c----hhhHHHHHHHHHhcCChHHHHHHHHHHHHc----CCCc
Q 039362          228 LTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQS---D----VLIWNAMIGGLAMHGFVKESLELFTEMQIV----GITP  296 (440)
Q Consensus       228 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~---~----~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~----~~~p  296 (440)
                      ....++..+..++...|++++|...+++.....+   +    ..++..+...+...|++++|...+++..+.    +..+
T Consensus       221 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~  300 (338)
T 3ro2_A          221 AERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRI  300 (338)
T ss_dssp             HHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHH
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhcCCcH
Confidence            1123566677777777777777777777654321   1    345666777778888888888888776543    1111


Q ss_pred             -cHhhHHHHHHHHHcCCChHHHHHHHHHHhhc
Q 039362          297 -DEITFLGLLSACAHGGLVMEAWYFFKSLGKR  327 (440)
Q Consensus       297 -~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  327 (440)
                       ...++..+...+...|++++|...+++..+.
T Consensus       301 ~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~  332 (338)
T 3ro2_A          301 GEGRACWSLGNAYTALGNHDQAMHFAEKHLEI  332 (338)
T ss_dssp             HHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHHHcCChHHHHHHHHHHHHH
Confidence             1335667777788888888888888887764

>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=99.60  E-value=4.1e-12  Score=119.57  Aligned_cols=386  Identities=9%  Similarity=0.032  Sum_probs=267.9

Q ss_pred             CChhhHHHHhhhcC---CCChHHHHHHHHHHHccCC---hhhHHHHHHHHHHcC-CCCCcchHHHHHHHhhchhc-----
Q 039362           11 GNIDYSCKVLSHLS---NPRIFYWNTVIRGYSKSKN---PNKSISLFVKMLRAG-VSPDHLTYPFLAKASGRLAK-----   78 (440)
Q Consensus        11 g~~~~A~~~~~~~~---~~~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~-----   78 (440)
                      |.++.|..+|+++.   +.....|...+..-.+.|+   ++.+..+|++..... .+|+...|..-+....+.++     
T Consensus        80 ~~~~~aR~vyEraL~~fP~~~~lW~~Yi~~E~~~~~~~~~~~v~~lfeRal~~~~~~~sv~LW~~Yl~f~~~~~~~~~~~  159 (679)
T 4e6h_A           80 KQWKQVYETFDKLHDRFPLMANIWCMRLSLEFDKMEELDAAVIEPVLARCLSKELGNNDLSLWLSYITYVRKKNDIITGG  159 (679)
T ss_dssp             TCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTC--CCCHHHHHHHHHHHTCSSSCCCCHHHHHHHHHHHHHHSCSTTTH
T ss_pred             CcHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHhhCCcchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhccccccc
Confidence            78999999999875   6677889999999899999   999999999998763 13787788877766554443     


Q ss_pred             ---HHHHHHHHHHHHHc-CC-CC-cHHHHHHHHHHHH---------hcCCHHHHHHHhhCCCC-C--c-hhhH---HHHH
Q 039362           79 ---RELAVAVHAQIAKT-GY-ES-DLFISNSLIHMYG---------SCGDIVYAREVFDGMPT-K--M-SVSW---NSML  136 (440)
Q Consensus        79 ---~~~a~~~~~~~~~~-~~-~~-~~~~~~~l~~~~~---------~~g~~~~a~~~~~~~~~-~--~-~~~~---~~l~  136 (440)
                         .+.+.++|+.++.. |. .+ +...|...+....         ..++++.+..+|+.+.. |  + ..+|   ..+.
T Consensus       160 ~~~r~~vr~~FErAl~~vG~~d~~s~~iW~~Yi~f~~~~~~~~~~eeq~~~~~~R~iy~raL~iP~~~~~~~w~~Y~~fe  239 (679)
T 4e6h_A          160 EEARNIVIQAFQVVVDKCAIFEPKSIQFWNEYLHFLEHWKPVNKFEEQQRVQYIRKLYKTLLCQPMDCLESMWQRYTQWE  239 (679)
T ss_dssp             HHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHTCCCCSHHHHHHHHHHHHHHHHHHTTSCCSSHHHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHhccccCcHHHHhHHHHHHHHHHHHHhCccHHHHHHHHHHHHHH
Confidence               24456788877653 54 44 3567777776543         23457788899988764 2  1 1122   2222


Q ss_pred             HHH----------HhcCChHHHHHHHhhC-------CC--Cc--------------------hhhHHHHHHHHHhcC---
Q 039362          137 DGY----------AKCGEMNMARQVFELM-------PE--RN--------------------VVSWSALIDGYVKCG---  174 (440)
Q Consensus       137 ~~~----------~~~~~~~~a~~~~~~~-------~~--~~--------------------~~~~~~l~~~~~~~~---  174 (440)
                      ...          ....+++.|...+..+       ..  |.                    ...|...+.---..+   
T Consensus       240 ~~~~~~~a~~~~~e~~~~y~~Ar~~~~e~~~~~~~l~r~~p~~~~~~~~~~~p~~~~~~~~ql~lW~~yi~fEk~~~~~l  319 (679)
T 4e6h_A          240 QDVNQLTARRHIGELSAQYMNARSLYQDWLNITKGLKRNLPITLNQATESNLPKPNEYDVQQLLIWLEWIRWESDNKLEL  319 (679)
T ss_dssp             HHHCTTTHHHHHHHHHHHHHHHHHHHHHHHHHTTTCCCCCCSSSTTCCTTTSCCTTCCCHHHHHHHHHHHHHHHTCTTCC
T ss_pred             HhcCcchHHHHHHHhhHHHHHHHHHHHHHHHHHHhHhhccccccccchhccCCCCchhHHHHHHHHHHHHHHHHhCCccc
Confidence            211          0112233444444331       10  00                    134555544333222   


Q ss_pred             ----CHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHH-HHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHH
Q 039362          175 ----DYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGR-MMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEA  249 (440)
Q Consensus       175 ----~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~-~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  249 (440)
                          ..+.+..+|++.+... +-....|...+..+...|+.++|. .+|+...... |.+...+..++....+.|++++|
T Consensus       320 ~~~~~~~Rv~~~Ye~aL~~~-p~~~~lW~~ya~~~~~~~~~~~a~r~il~rAi~~~-P~s~~Lwl~~a~~ee~~~~~e~a  397 (679)
T 4e6h_A          320 SDDLHKARMTYVYMQAAQHV-CFAPEIWFNMANYQGEKNTDSTVITKYLKLGQQCI-PNSAVLAFSLSEQYELNTKIPEI  397 (679)
T ss_dssp             CHHHHHHHHHHHHHHHHHHT-TTCHHHHHHHHHHHHHHSCCTTHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             cchhhHHHHHHHHHHHHHHc-CCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhCCHHHH
Confidence                1345667888887653 556777777777788889999996 9999998754 66777788889999999999999


Q ss_pred             HHHHhhhhhc-----------CCc------------hhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHH
Q 039362          250 LIVFHGVEKH-----------QSD------------VLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLS  306 (440)
Q Consensus       250 ~~~~~~~~~~-----------~~~------------~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~  306 (440)
                      ..+|+++.+.           .|+            ...|...+....+.|+.+.|..+|.++.+.-..+....|...+.
T Consensus       398 R~iyek~l~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~y~~~erR~~~l~~AR~vf~~A~~~~~~~~~~lyi~~A~  477 (679)
T 4e6h_A          398 ETTILSCIDRIHLDLAALMEDDPTNESAINQLKSKLTYVYCVYMNTMKRIQGLAASRKIFGKCRRLKKLVTPDIYLENAY  477 (679)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHTGGGSCTHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhhhhhccCcchhhhhhhccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcCCCChHHHHHHHH
Confidence            9999988753           131            23677788888888999999999999987611222334433333


Q ss_pred             HHHcC-CChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcC-CCCc----cHhHHHHHHHHHHhcCC
Q 039362          307 ACAHG-GLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQM-PLEP----TASMLGSLLTGCMNHGK  380 (440)
Q Consensus       307 ~~~~~-~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p----~~~~~~~l~~~~~~~g~  380 (440)
                      .-.+. ++.+.|..+|+..++. ++.+...+...++.....|+.+.|..+|++. ...|    ....|...+..-.+.|+
T Consensus       478 lE~~~~~d~e~Ar~ife~~Lk~-~p~~~~~w~~y~~fe~~~~~~~~AR~lferal~~~~~~~~~~~lw~~~~~fE~~~G~  556 (679)
T 4e6h_A          478 IEYHISKDTKTACKVLELGLKY-FATDGEYINKYLDFLIYVNEESQVKSLFESSIDKISDSHLLKMIFQKVIFFESKVGS  556 (679)
T ss_dssp             HHHTTTSCCHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHTTTSSSTTHHHHHHHHHHHHHHHTCC
T ss_pred             HHHHhCCCHHHHHHHHHHHHHH-CCCchHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCC
Confidence            23343 5589999999999986 2335556678888888999999999999997 3334    34678888888889999


Q ss_pred             hhHHHHHHHHHHhcCCCCC
Q 039362          381 LDLAEIVGKKLVELQPDHD  399 (440)
Q Consensus       381 ~~~a~~~~~~~~~~~~~~~  399 (440)
                      .+.+..+.+++.+..|+++
T Consensus       557 ~~~~~~v~~R~~~~~P~~~  575 (679)
T 4e6h_A          557 LNSVRTLEKRFFEKFPEVN  575 (679)
T ss_dssp             SHHHHHHHHHHHHHSTTCC
T ss_pred             HHHHHHHHHHHHHhCCCCc
Confidence            9999999999999999876

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.59  E-value=7e-13  Score=114.48  Aligned_cols=215  Identities=5%  Similarity=-0.022  Sum_probs=175.7

Q ss_pred             HHHHHHHHHHHHcCCCCchhhHHHHHHHHHh-------cCCH-------HHHHHHHhhhhh-cCCc-hhhHHHHHHHHHh
Q 039362          212 DQGRMMLRYMIDKGLSLTLPLQTSLIDMYAK-------CGAI-------KEALIVFHGVEK-HQSD-VLIWNAMIGGLAM  275 (440)
Q Consensus       212 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-------~g~~-------~~A~~~~~~~~~-~~~~-~~~~~~l~~~~~~  275 (440)
                      ++|..+|+++++.. +.++..|..++..+..       .|++       ++|..+|++... ..|+ ...|..++..+..
T Consensus        33 ~~a~~~~~~al~~~-p~~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~~~~rAl~~~~p~~~~~~~~~~~~~~~  111 (308)
T 2ond_A           33 KRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEES  111 (308)
T ss_dssp             HHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHc-CCCHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHHHHHHHHHHhCcccHHHHHHHHHHHHh
Confidence            67888999988875 7788888888887763       5886       999999999998 4674 5689999999999


Q ss_pred             cCChHHHHHHHHHHHHcCCCcc-Hh-hHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHH-hcCCHHHH
Q 039362          276 HGFVKESLELFTEMQIVGITPD-EI-TFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALS-RAGQVTEA  352 (440)
Q Consensus       276 ~~~~~~a~~~~~~m~~~~~~p~-~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~-~~~~~~~a  352 (440)
                      .|++++|..+|+++.+.  .|+ .. .|..++..+.+.|++++|..+|+++.+.. +++...|...+.... ..|++++|
T Consensus       112 ~~~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~~a~~~~~~~~~~~~A  188 (308)
T 2ond_A          112 RMKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA-RTRHHVYVTAALMEYYCSKDKSVA  188 (308)
T ss_dssp             TTCHHHHHHHHHHHHTS--SSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTST-TCCTHHHHHHHHHHHHTSCCHHHH
T ss_pred             cCCHHHHHHHHHHHHhc--cccCccHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHcCCHHHH
Confidence            99999999999999974  554 33 78888889999999999999999999864 234444544333322 37999999


Q ss_pred             HHHHhcC-CCCc-cHhHHHHHHHHHHhcCChhHHHHHHHHHHhcC---CC-CCchHHHHHHHHHhccChHHHHHHHHHHH
Q 039362          353 YEFICQM-PLEP-TASMLGSLLTGCMNHGKLDLAEIVGKKLVELQ---PD-HDGRYVGLSNVYAIFKRWDEARTTREAME  426 (440)
Q Consensus       353 ~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~---~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  426 (440)
                      .++|++. ...| +...|..++..+.+.|++++|..+|+++++..   |. ....|..++..+.+.|+.++|..+++++.
T Consensus       189 ~~~~~~al~~~p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~~~~g~~~~a~~~~~~a~  268 (308)
T 2ond_A          189 FKIFELGLKKYGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRF  268 (308)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            9999988 3334 56788899999999999999999999999963   32 45578889999999999999999999998


Q ss_pred             hcCC
Q 039362          427 TRGV  430 (440)
Q Consensus       427 ~~~~  430 (440)
                      +...
T Consensus       269 ~~~p  272 (308)
T 2ond_A          269 TAFR  272 (308)
T ss_dssp             HHTT
T ss_pred             HHcc
Confidence            8654

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.59  E-value=1.1e-14  Score=126.10  Aligned_cols=243  Identities=14%  Similarity=0.043  Sum_probs=139.1

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHHhc-------CCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHc------C-
Q 039362          160 VVSWSALIDGYVKCGDYKEALVIFEEMRDV-------GSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDK------G-  225 (440)
Q Consensus       160 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-------~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~-  225 (440)
                      ..++..+...+...|++++|..+++++.+.       ..+.....+..+...+...|++++|...++++.+.      + 
T Consensus        27 ~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~  106 (311)
T 3nf1_A           27 LRTLHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKTLGKD  106 (311)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCTT
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCC
Confidence            456777888888888888888888887653       22333456677777788888888888888877654      1 


Q ss_pred             CCCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhcC--------C-chhhHHHHHHHHHhcCChHHHHHHHHHHHHc----
Q 039362          226 LSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQ--------S-DVLIWNAMIGGLAMHGFVKESLELFTEMQIV----  292 (440)
Q Consensus       226 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~--------~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~----  292 (440)
                      .+....++..+...|...|++++|...|+++.+..        | ....+..+...+...|++++|.+.++++.+.    
T Consensus       107 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~  186 (311)
T 3nf1_A          107 HPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLALLCQNQGKYEEVEYYYQRALEIYQTK  186 (311)
T ss_dssp             CHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHT
T ss_pred             ChHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHH
Confidence            12334566777777778888888887777765431        2 2345666677777777777777777776553    


Q ss_pred             --CCCcc-HhhHHHHHHHHHcCCChHHHHHHHHHHhhcC-------CCCCcchHHHHHHHHHhcCCHHHHHHHHhcCCCC
Q 039362          293 --GITPD-EITFLGLLSACAHGGLVMEAWYFFKSLGKRG-------MVPKSEHYACMVDALSRAGQVTEAYEFICQMPLE  362 (440)
Q Consensus       293 --~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  362 (440)
                        +..|+ ..++..+...+...|++++|...++++.+..       ..+.........                      
T Consensus       187 ~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~----------------------  244 (311)
T 3nf1_A          187 LGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHEREFGSVDDENKPIWMHA----------------------  244 (311)
T ss_dssp             SCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHC------CCHHHHH----------------------
T ss_pred             hCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCCcchHHHHHHH----------------------
Confidence              11222 3356666667777777777777777766520       111111111111                      


Q ss_pred             ccHhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCCchHHHHHHHHHhccChHHHHHHHHHHHh
Q 039362          363 PTASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEARTTREAMET  427 (440)
Q Consensus       363 p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  427 (440)
                         ..+..+...+...+.+.++...+++.....|....++..++.+|.+.|++++|.+++++..+
T Consensus       245 ---~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  306 (311)
T 3nf1_A          245 ---EEREECKGKQKDGTSFGEYGGWYKACKVDSPTVTTTLKNLGALYRRQGKFEAAETLEEAAMR  306 (311)
T ss_dssp             ---HHHHHC-------CCSCCCC---------CHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             ---HHHHHhcCchhhHHHHHHHHHHHhhcCCCCchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence               11112222233344455555555555555555555566666666666666666666665554

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.57  E-value=1.6e-14  Score=125.02  Aligned_cols=241  Identities=12%  Similarity=0.087  Sum_probs=170.1

Q ss_pred             hhhHHHHHHHHHhcCChHHHHHHHhhCCC--------C---chhhHHHHHHHHHhcCCHHHHHHHHHHHHhc------CC
Q 039362          129 SVSWNSMLDGYAKCGEMNMARQVFELMPE--------R---NVVSWSALIDGYVKCGDYKEALVIFEEMRDV------GS  191 (440)
Q Consensus       129 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--------~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~~  191 (440)
                      ..++..+...+...|++++|...|+++.+        .   ...++..+...|...|++++|...+++....      +.
T Consensus        27 ~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~  106 (311)
T 3nf1_A           27 LRTLHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKTLGKD  106 (311)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCTT
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCC
Confidence            45788899999999999999999998764        1   2456888899999999999999999998764      22


Q ss_pred             CC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHHc------CC-CCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhc----
Q 039362          192 KA-NEVTLVSVLCACAHLGALDQGRMMLRYMIDK------GL-SLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKH----  259 (440)
Q Consensus       192 ~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~----  259 (440)
                      .| ....+..+...+...|++++|...++++.+.      +. +.....+..+..+|...|++++|+.+|+++...    
T Consensus       107 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~  186 (311)
T 3nf1_A          107 HPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLALLCQNQGKYEEVEYYYQRALEIYQTK  186 (311)
T ss_dssp             CHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHT
T ss_pred             ChHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHH
Confidence            22 3567788889999999999999999998765      22 334567788999999999999999999998764    


Q ss_pred             ----CC-chhhHHHHHHHHHhcCChHHHHHHHHHHHHcC-------CCccHhhHHHHHHHHHcCCChHHHHHHHHHHhhc
Q 039362          260 ----QS-DVLIWNAMIGGLAMHGFVKESLELFTEMQIVG-------ITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKR  327 (440)
Q Consensus       260 ----~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~-------~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  327 (440)
                          .| ....+..+...+...|++++|...++++.+..       ..+..........                     
T Consensus       187 ~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~---------------------  245 (311)
T 3nf1_A          187 LGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHEREFGSVDDENKPIWMHAE---------------------  245 (311)
T ss_dssp             SCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHC------CCHHHHHH---------------------
T ss_pred             hCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCCcchHHHHHHHH---------------------
Confidence                33 24578888999999999999999999988641       1111111111111                     


Q ss_pred             CCCCCcchHHHHHHHHHhcCCHHHHHHHHhcC-CCCc-cHhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCC
Q 039362          328 GMVPKSEHYACMVDALSRAGQVTEAYEFICQM-PLEP-TASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPD  397 (440)
Q Consensus       328 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  397 (440)
                             .+..+...+...+.+.++...++.. ...| ...++..+...+...|++++|..++++++++.|.
T Consensus       246 -------~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l~~~  310 (311)
T 3nf1_A          246 -------EREECKGKQKDGTSFGEYGGWYKACKVDSPTVTTTLKNLGALYRRQGKFEAAETLEEAAMRSRKQ  310 (311)
T ss_dssp             -------HHHHC-------CCSCCCC---------CHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHC-
T ss_pred             -------HHHHhcCchhhHHHHHHHHHHHhhcCCCCchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhc
Confidence                   1122223334455556666666666 2334 4467888888999999999999999998887654

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.57  E-value=1e-12  Score=104.11  Aligned_cols=165  Identities=12%  Similarity=0.045  Sum_probs=89.7

Q ss_pred             chhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHH
Q 039362          159 NVVSWSALIDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLID  238 (440)
Q Consensus       159 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  238 (440)
                      ++..|..+...|...|++++|++.|++..+.. +-+...+..+..++...|++++|...+....... +.+...+..+..
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            34455555556666666666666666555543 3344455555555555666666665555555544 344445555555


Q ss_pred             HHHhcCCHHHHHHHHhhhhhcCC-chhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHH
Q 039362          239 MYAKCGAIKEALIVFHGVEKHQS-DVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEA  317 (440)
Q Consensus       239 ~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a  317 (440)
                      .+...++++.|...+.+.....| +...+..+...+...|++++|++.|++..+.. +.+..++..+..++.+.|++++|
T Consensus        82 ~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~lg~~~~~~g~~~~A  160 (184)
T 3vtx_A           82 ANFMIDEKQAAIDALQRAIALNTVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIK-PGFIRAYQSIGLAYEGKGLRDEA  160 (184)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhc-chhhhHHHHHHHHHHHCCCHHHH
Confidence            55555555555555555554444 34445555555555555555555555555442 33344555555555555555555


Q ss_pred             HHHHHHHhh
Q 039362          318 WYFFKSLGK  326 (440)
Q Consensus       318 ~~~~~~~~~  326 (440)
                      +..|+++++
T Consensus       161 ~~~~~~al~  169 (184)
T 3vtx_A          161 VKYFKKALE  169 (184)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHh
Confidence            555555554

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.55  E-value=1.2e-11  Score=109.90  Aligned_cols=262  Identities=12%  Similarity=0.002  Sum_probs=128.6

Q ss_pred             HHHHHhcCChHHHHHHHhhCCC--C--ch----hhHHHHHHHHHhcCCHHHHHHHHHHHHhcCC-CCCH----HHHHHHH
Q 039362          136 LDGYAKCGEMNMARQVFELMPE--R--NV----VSWSALIDGYVKCGDYKEALVIFEEMRDVGS-KANE----VTLVSVL  202 (440)
Q Consensus       136 ~~~~~~~~~~~~a~~~~~~~~~--~--~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~----~~~~~l~  202 (440)
                      ...+...|++++|...+++...  |  +.    .+++.+...+...|++++|...+++...... .++.    .++..+.
T Consensus        21 a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la  100 (373)
T 1hz4_A           21 AQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQS  100 (373)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHH
Confidence            3344556666666666655332  1  11    1344455556666666666666666543210 0111    1234445


Q ss_pred             HHHHhcCChHHHHHHHHHHHHc----CCC--C-chhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCCc------hhhHHHH
Q 039362          203 CACAHLGALDQGRMMLRYMIDK----GLS--L-TLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQSD------VLIWNAM  269 (440)
Q Consensus       203 ~~~~~~~~~~~a~~~~~~~~~~----~~~--~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~------~~~~~~l  269 (440)
                      ..+...|++++|...+++..+.    +.+  | ....+..+..++...|++++|...+++.....+.      ...+..+
T Consensus       101 ~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l  180 (373)
T 1hz4_A          101 EILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAML  180 (373)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHHHHHHH
Confidence            5556666666666666665432    111  1 1233444556666666666666666665433221      2234455


Q ss_pred             HHHHHhcCChHHHHHHHHHHHHcCCCccH-hhHH-----HHHHHHHcCCChHHHHHHHHHHhhcCCCCC---cchHHHHH
Q 039362          270 IGGLAMHGFVKESLELFTEMQIVGITPDE-ITFL-----GLLSACAHGGLVMEAWYFFKSLGKRGMVPK---SEHYACMV  340 (440)
Q Consensus       270 ~~~~~~~~~~~~a~~~~~~m~~~~~~p~~-~~~~-----~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~  340 (440)
                      ...+...|++++|...+++.......++. ..+.     ..+..+...|++++|...+++.......+.   ...+..+.
T Consensus       181 a~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~la  260 (373)
T 1hz4_A          181 IQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIA  260 (373)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHHHHHCCCHHHHHHHHHhCCCCCCCcchhhHHHHHHHH
Confidence            55566666666666666665433111110 1111     122234456666666666666554321111   11234455


Q ss_pred             HHHHhcCCHHHHHHHHhcC-------CCCccH-hHHHHHHHHHHhcCChhHHHHHHHHHHhcCCC
Q 039362          341 DALSRAGQVTEAYEFICQM-------PLEPTA-SMLGSLLTGCMNHGKLDLAEIVGKKLVELQPD  397 (440)
Q Consensus       341 ~~~~~~~~~~~a~~~~~~~-------~~~p~~-~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  397 (440)
                      ..+...|++++|...+++.       +..++. ..+..+..++...|+.++|...++++....++
T Consensus       261 ~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~al~~~~~  325 (373)
T 1hz4_A          261 RAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALKLANR  325 (373)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHHHhCcchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhcc
Confidence            5566666666666666554       111111 23444455555666666666666666555444

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.54  E-value=2.7e-13  Score=124.22  Aligned_cols=195  Identities=10%  Similarity=-0.032  Sum_probs=92.2

Q ss_pred             hhhHHHHHHHHHhcCCH-HHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHH
Q 039362          160 VVSWSALIDGYVKCGDY-KEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLID  238 (440)
Q Consensus       160 ~~~~~~l~~~~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  238 (440)
                      ...+..+...+...|++ ++|++.|++..+.. +.+...+..+..++...|++++|...|++..+..  |+...+..+..
T Consensus       102 a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~lg~  178 (474)
T 4abn_A          102 AQALMLKGKALNVTPDYSPEAEVLLSKAVKLE-PELVEAWNQLGEVYWKKGDVTSAHTCFSGALTHC--KNKVSLQNLSM  178 (474)
T ss_dssp             HHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTC--CCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccccHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC--CCHHHHHHHHH
Confidence            34444455555555555 55555555554442 2234444455555555555555555555554442  22344444555


Q ss_pred             HHHhc---------CCHHHHHHHHhhhhhcCC-chhhHHHHHHHHHhc--------CChHHHHHHHHHHHHcCCC---cc
Q 039362          239 MYAKC---------GAIKEALIVFHGVEKHQS-DVLIWNAMIGGLAMH--------GFVKESLELFTEMQIVGIT---PD  297 (440)
Q Consensus       239 ~~~~~---------g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~--------~~~~~a~~~~~~m~~~~~~---p~  297 (440)
                      +|...         |++++|+..|+++.+..| +...|..+..+|...        |++++|+..|++..+.. +   .+
T Consensus       179 ~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~  257 (474)
T 4abn_A          179 VLRQLQTDSGDEHSRHVMDSVRQAKLAVQMDVLDGRSWYILGNAYLSLYFNTGQNPKISQQALSAYAQAEKVD-RKASSN  257 (474)
T ss_dssp             HHTTCCCSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHC-GGGGGC
T ss_pred             HHHHhccCChhhhhhhHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhC-CCcccC
Confidence            55555         555555555555444433 244444444444444        44555555555544432 1   23


Q ss_pred             HhhHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcC
Q 039362          298 EITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQM  359 (440)
Q Consensus       298 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  359 (440)
                      ...+..+..++...|++++|...|+++.+.. +.+...+..+...+...|++++|.+.+.++
T Consensus       258 ~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~a~~~l~~~~~~lg~~~eAi~~~~~~  318 (474)
T 4abn_A          258 PDLHLNRATLHKYEESYGEALEGFSQAAALD-PAWPEPQQREQQLLEFLSRLTSLLESKGKT  318 (474)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHHHHHTTTC
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence            3444445555555555555555555544432 112233444444444455555554444433

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.53  E-value=5.9e-12  Score=112.11  Aligned_cols=230  Identities=12%  Similarity=0.024  Sum_probs=151.3

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhcCC-CCC----HHHHHHHHHHHHhcCChHHHHHHHHHHHHcCC-----C-Cchhh
Q 039362          164 SALIDGYVKCGDYKEALVIFEEMRDVGS-KAN----EVTLVSVLCACAHLGALDQGRMMLRYMIDKGL-----S-LTLPL  232 (440)
Q Consensus       164 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-----~-~~~~~  232 (440)
                      ......+...|++++|+..|++...... .++    ..++..+..++...|+++.|...+++..+...     . ....+
T Consensus       105 ~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~  184 (378)
T 3q15_A          105 FFRGMYEFDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQS  184 (378)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHHH
T ss_pred             HHHHHHHHHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHHH
Confidence            3345566778888888888888765311 122    34566777788888888888888887765311     1 12446


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHhhhhhc---CC----chhhHHHHHHHHHhcCChHHHHHHHHHHHHc----CCCccHhhH
Q 039362          233 QTSLIDMYAKCGAIKEALIVFHGVEKH---QS----DVLIWNAMIGGLAMHGFVKESLELFTEMQIV----GITPDEITF  301 (440)
Q Consensus       233 ~~~l~~~~~~~g~~~~A~~~~~~~~~~---~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~----~~~p~~~~~  301 (440)
                      +..+..+|...|++++|...|++..+.   .+    ...++..+...|...|++++|++.+++..+.    +.+....++
T Consensus       185 ~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~  264 (378)
T 3q15_A          185 LFVIAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVPDLLPKVL  264 (378)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCGGGHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCChhHHHHH
Confidence            677888888888888888888876643   11    1345677778888888888888888887651    223335567


Q ss_pred             HHHHHHHHcCCChHHHHHHHHHHhhcCCCC-C---cchHHHHHHHHHhcCC---HHHHHHHHhcCCCCccH-hHHHHHHH
Q 039362          302 LGLLSACAHGGLVMEAWYFFKSLGKRGMVP-K---SEHYACMVDALSRAGQ---VTEAYEFICQMPLEPTA-SMLGSLLT  373 (440)
Q Consensus       302 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~---~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~p~~-~~~~~l~~  373 (440)
                      ..+...+.+.|++++|...+++..+..... +   ...+..+...|...++   +.+|+..+++.+..|+. ..+..+..
T Consensus       265 ~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~~~~~~~~~~~~~~~~~la~  344 (378)
T 3q15_A          265 FGLSWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSYFEKKNLHAYIEACARSAAA  344 (378)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhCCChhHHHHHHHHHHH
Confidence            777888888888888888888877652111 1   1223444555556666   77777777776444433 34556666


Q ss_pred             HHHhcCChhHHHHHHHHHHh
Q 039362          374 GCMNHGKLDLAEIVGKKLVE  393 (440)
Q Consensus       374 ~~~~~g~~~~a~~~~~~~~~  393 (440)
                      .|...|++++|...++++.+
T Consensus       345 ~y~~~g~~~~A~~~~~~al~  364 (378)
T 3q15_A          345 VFESSCHFEQAAAFYRKVLK  364 (378)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHH
Confidence            67777777777777776654

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.53  E-value=7.7e-13  Score=117.85  Aligned_cols=228  Identities=10%  Similarity=-0.035  Sum_probs=172.4

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHcCC-----CCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhc---CC-----chhhH
Q 039362          200 SVLCACAHLGALDQGRMMLRYMIDKGL-----SLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKH---QS-----DVLIW  266 (440)
Q Consensus       200 ~l~~~~~~~~~~~~a~~~~~~~~~~~~-----~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~---~~-----~~~~~  266 (440)
                      .....+...|++++|...+++..+...     +....++..+..+|...|+++.|...+.+....   .+     ...++
T Consensus       106 ~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  185 (378)
T 3q15_A          106 FRGMYEFDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQSL  185 (378)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHHHH
T ss_pred             HHHHHHHHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHHHH
Confidence            344556789999999999999876421     123457788999999999999999999987654   11     13467


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHc----CCCc-cHhhHHHHHHHHHcCCChHHHHHHHHHHhhc----CCCCCcchHH
Q 039362          267 NAMIGGLAMHGFVKESLELFTEMQIV----GITP-DEITFLGLLSACAHGGLVMEAWYFFKSLGKR----GMVPKSEHYA  337 (440)
Q Consensus       267 ~~l~~~~~~~~~~~~a~~~~~~m~~~----~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~~~~~~  337 (440)
                      +.+...|...|++++|.+.+++..+.    +..+ ...++..+...+...|++++|...+++..+.    +.+....++.
T Consensus       186 ~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~  265 (378)
T 3q15_A          186 FVIAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVPDLLPKVLF  265 (378)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCGGGHHHHHH
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCChhHHHHHH
Confidence            88899999999999999999987653    2111 2346778888999999999999999998872    2122356788


Q ss_pred             HHHHHHHhcCCHHHHHHHHhcC----CC--Cc-cHhHHHHHHHHHHhcCC---hhHHHHHHHHHHhcCCCCCchHHHHHH
Q 039362          338 CMVDALSRAGQVTEAYEFICQM----PL--EP-TASMLGSLLTGCMNHGK---LDLAEIVGKKLVELQPDHDGRYVGLSN  407 (440)
Q Consensus       338 ~l~~~~~~~~~~~~a~~~~~~~----~~--~p-~~~~~~~l~~~~~~~g~---~~~a~~~~~~~~~~~~~~~~~~~~l~~  407 (440)
                      .+...|.+.|++++|...+++.    ..  .| ....+..+...+...|+   ..+|+..+++. ...|.....+..++.
T Consensus       266 ~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~~~~~-~~~~~~~~~~~~la~  344 (378)
T 3q15_A          266 GLSWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSYFEKK-NLHAYIEACARSAAA  344 (378)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHHHHHT-TCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhC-CChhHHHHHHHHHHH
Confidence            8999999999999999999886    11  22 23455666666777888   77787777762 112333456778999


Q ss_pred             HHHhccChHHHHHHHHHHHhc
Q 039362          408 VYAIFKRWDEARTTREAMETR  428 (440)
Q Consensus       408 ~~~~~g~~~~A~~~~~~~~~~  428 (440)
                      .|...|++++|.+.+++..+.
T Consensus       345 ~y~~~g~~~~A~~~~~~al~~  365 (378)
T 3q15_A          345 VFESSCHFEQAAAFYRKVLKA  365 (378)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHH
Confidence            999999999999999988753

>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=99.51  E-value=2e-12  Score=106.36  Aligned_cols=207  Identities=11%  Similarity=-0.061  Sum_probs=157.3

Q ss_pred             CCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCCc-hhhHHHHHH
Q 039362          193 ANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQSD-VLIWNAMIG  271 (440)
Q Consensus       193 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~l~~  271 (440)
                      .+...+......+...|++++|...|++..+...+++...+..+..++...|++++|+..|++..+..|+ ...+..+..
T Consensus         5 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~   84 (228)
T 4i17_A            5 TDPNQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKNYNLANAYIGKSA   84 (228)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCSHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCcchHHHHHHHHH
Confidence            4567788888889999999999999999998874377778877999999999999999999999888774 677888999


Q ss_pred             HHHhcCChHHHHHHHHHHHHcCCCccH-------hhHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCC---cchHHHHHH
Q 039362          272 GLAMHGFVKESLELFTEMQIVGITPDE-------ITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPK---SEHYACMVD  341 (440)
Q Consensus       272 ~~~~~~~~~~a~~~~~~m~~~~~~p~~-------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~  341 (440)
                      .+...|++++|+..+++..+.. +.+.       ..|..+...+...|++++|+..|+++.+.  .|+   ...+..+..
T Consensus        85 ~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~l~~  161 (228)
T 4i17_A           85 AYRDMKNNQEYIATLTEGIKAV-PGNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDV--TSKKWKTDALYSLGV  161 (228)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS--SCHHHHHHHHHHHHH
T ss_pred             HHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhc--CCCcccHHHHHHHHH
Confidence            9999999999999999988764 3334       45777777888899999999999999885  344   456777777


Q ss_pred             HHHhcCCH--HHHHHHHhcCCCCccHhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCCchHHHHHHHH
Q 039362          342 ALSRAGQV--TEAYEFICQMPLEPTASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVY  409 (440)
Q Consensus       342 ~~~~~~~~--~~a~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~  409 (440)
                      .|...|+.  +++..+.     ..+...+....  ....+.+++|+..++++.+.+|.++.+...+..+.
T Consensus       162 ~~~~~~~~~~~~a~~~~-----~~~~~~~~~~~--~~~~~~~~~A~~~~~~a~~l~p~~~~~~~~l~~i~  224 (228)
T 4i17_A          162 LFYNNGADVLRKATPLA-----SSNKEKYASEK--AKADAAFKKAVDYLGEAVTLSPNRTEIKQMQDQVK  224 (228)
T ss_dssp             HHHHHHHHHHHHHGGGT-----TTCHHHHHHHH--HHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhcc-----cCCHHHHHHHH--HHHHHHHHHHHHHHHHHhhcCCCCHHHHHHHHHHH
Confidence            77666543  2222111     11233333332  33456789999999999999999987766665543

>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=99.51  E-value=4e-13  Score=127.97  Aligned_cols=163  Identities=17%  Similarity=0.207  Sum_probs=105.8

Q ss_pred             hhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHH
Q 039362          263 VLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDA  342 (440)
Q Consensus       263 ~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  342 (440)
                      ...++.+...+.+.|++++|++.|++..+.. +-+...+..+..++.+.|++++|+..|+++++.. +-+...|..+..+
T Consensus         9 a~al~nLG~~~~~~G~~~eAi~~~~kAl~l~-P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l~-P~~~~a~~nLg~~   86 (723)
T 4gyw_A            9 ADSLNNLANIKREQGNIEEAVRLYRKALEVF-PEFAAAHSNLASVLQQQGKLQEALMHYKEAIRIS-PTFADAYSNMGNT   86 (723)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHH
Confidence            3455555555555555555555555555442 2234455555555556666666666666655542 1134455666666


Q ss_pred             HHhcCCHHHHHHHHhcC-CCCc-cHhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCCchHHHHHHHHHhccChHHHHH
Q 039362          343 LSRAGQVTEAYEFICQM-PLEP-TASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEART  420 (440)
Q Consensus       343 ~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  420 (440)
                      |...|++++|++.|++. .+.| +...+..+..++...|++++|+..|+++++++|+++..+..++.+|...|++++|.+
T Consensus        87 l~~~g~~~~A~~~~~kAl~l~P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~P~~~~a~~~L~~~l~~~g~~~~A~~  166 (723)
T 4gyw_A           87 LKEMQDVQGALQCYTRAIQINPAFADAHSNLASIHKDSGNIPEAIASYRTALKLKPDFPDAYCNLAHCLQIVCDWTDYDE  166 (723)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCCTTHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHhhhhhHHHhcccHHHHHH
Confidence            66666666666666665 3444 346677777888888888888888888888888888888888888888888888888


Q ss_pred             HHHHHHh
Q 039362          421 TREAMET  427 (440)
Q Consensus       421 ~~~~~~~  427 (440)
                      .++++++
T Consensus       167 ~~~kal~  173 (723)
T 4gyw_A          167 RMKKLVS  173 (723)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            8777765

>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=99.50  E-value=3.9e-13  Score=106.59  Aligned_cols=165  Identities=15%  Similarity=0.008  Sum_probs=100.7

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHhhhhhcCC-chhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHH
Q 039362          231 PLQTSLIDMYAKCGAIKEALIVFHGVEKHQS-DVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACA  309 (440)
Q Consensus       231 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~  309 (440)
                      ..+..+...+...|++++|...++++.+..| +...+..+...+...|++++|...++++.+.. +.+...+..+...+.
T Consensus         9 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~   87 (186)
T 3as5_A            9 VYYRDKGISHAKAGRYSQAVMLLEQVYDADAFDVDVALHLGIAYVKTGAVDRGTELLERSLADA-PDNVKVATVLGLTYV   87 (186)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHTTTCCTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHhCccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHH
Confidence            3455566666666777777777766665444 34555566666666666666666666665542 233444445555555


Q ss_pred             cCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcCCCCccHhHHHHHHHHHHhcCChhHHHHHHH
Q 039362          310 HGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQMPLEPTASMLGSLLTGCMNHGKLDLAEIVGK  389 (440)
Q Consensus       310 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~  389 (440)
                      ..|++++|...++++.+..                                 +.+...+..++..+...|++++|...++
T Consensus        88 ~~~~~~~A~~~~~~~~~~~---------------------------------~~~~~~~~~~a~~~~~~~~~~~A~~~~~  134 (186)
T 3as5_A           88 QVQKYDLAVPLLIKVAEAN---------------------------------PINFNVRFRLGVALDNLGRFDEAIDSFK  134 (186)
T ss_dssp             HHTCHHHHHHHHHHHHHHC---------------------------------TTCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HhcCHHHHHHHHHHHHhcC---------------------------------cHhHHHHHHHHHHHHHcCcHHHHHHHHH
Confidence            5555555555555554431                                 1233455566666667777777777777


Q ss_pred             HHHhcCCCCCchHHHHHHHHHhccChHHHHHHHHHHHhcC
Q 039362          390 KLVELQPDHDGRYVGLSNVYAIFKRWDEARTTREAMETRG  429 (440)
Q Consensus       390 ~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  429 (440)
                      ++.+..|.++..+..++.++...|++++|.+.++++.+..
T Consensus       135 ~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~  174 (186)
T 3as5_A          135 IALGLRPNEGKVHRAIAFSYEQMGRHEEALPHFKKANELD  174 (186)
T ss_dssp             HHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHhcCccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC
Confidence            7777777766677777777777777777777777766543

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.49  E-value=8.5e-12  Score=110.93  Aligned_cols=290  Identities=12%  Similarity=0.025  Sum_probs=155.3

Q ss_pred             HHHHHHHHhcCCHHHHHHHhhCCC----CCchh----hHHHHHHHHHhcCChHHHHHHHhhCCC-----Cc----hhhHH
Q 039362          102 NSLIHMYGSCGDIVYAREVFDGMP----TKMSV----SWNSMLDGYAKCGEMNMARQVFELMPE-----RN----VVSWS  164 (440)
Q Consensus       102 ~~l~~~~~~~g~~~~a~~~~~~~~----~~~~~----~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~----~~~~~  164 (440)
                      ......+...|++++|...+++..    ..+..    .+..+...+...|++++|.+.+++...     .+    ..++.
T Consensus        18 ~~~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~   97 (373)
T 1hz4_A           18 ALRAQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLI   97 (373)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHHHH
Confidence            334445556677777777665432    11211    344555666677777777777766543     11    12345


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhc----CCC--CC-HHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC----chhhH
Q 039362          165 ALIDGYVKCGDYKEALVIFEEMRDV----GSK--AN-EVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSL----TLPLQ  233 (440)
Q Consensus       165 ~l~~~~~~~~~~~~a~~~~~~~~~~----~~~--~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~----~~~~~  233 (440)
                      .+...+...|++++|...+++....    +..  |. ...+..+...+...|++++|...+++..+.....    ....+
T Consensus        98 ~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~  177 (373)
T 1hz4_A           98 QQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCL  177 (373)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHHHH
Confidence            5666677777777777777765432    211  21 2344455666667777777777777765543211    12345


Q ss_pred             HHHHHHHHhcCCHHHHHHHHhhhhhc--CCch-hhHH-----HHHHHHHhcCChHHHHHHHHHHHHcCCCcc---HhhHH
Q 039362          234 TSLIDMYAKCGAIKEALIVFHGVEKH--QSDV-LIWN-----AMIGGLAMHGFVKESLELFTEMQIVGITPD---EITFL  302 (440)
Q Consensus       234 ~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~~-~~~~-----~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~---~~~~~  302 (440)
                      ..+...+...|++++|...+++....  .++. ..+.     ..+..+...|++++|...+++.......+.   ...+.
T Consensus       178 ~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~  257 (373)
T 1hz4_A          178 AMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWR  257 (373)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHHHHHCCCHHHHHHHHHhCCCCCCCcchhhHHHHH
Confidence            56666677777777777777766533  1111 1111     122335567777777777766554321111   12345


Q ss_pred             HHHHHHHcCCChHHHHHHHHHHhhc----CCCCCc-chHHHHHHHHHhcCCHHHHHHHHhcC-CCCccHhHHHHHHHHHH
Q 039362          303 GLLSACAHGGLVMEAWYFFKSLGKR----GMVPKS-EHYACMVDALSRAGQVTEAYEFICQM-PLEPTASMLGSLLTGCM  376 (440)
Q Consensus       303 ~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p~~~~~~~l~~~~~  376 (440)
                      .+...+...|++++|...+++....    |..++. ..+..+..++...|+.++|...+++. ...+..    .....+.
T Consensus       258 ~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~al~~~~~~----g~~~~~~  333 (373)
T 1hz4_A          258 NIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALKLANRT----GFISHFV  333 (373)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHH----CCCHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHhCcchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhccc----cHHHHHH
Confidence            5566666777777777777766543    111111 24445566666777777777776655 111110    1112233


Q ss_pred             hcCChhHHHHHHHHHHhcCCC
Q 039362          377 NHGKLDLAEIVGKKLVELQPD  397 (440)
Q Consensus       377 ~~g~~~~a~~~~~~~~~~~~~  397 (440)
                      ..|  +....+++......|.
T Consensus       334 ~~g--~~~~~ll~~~~~~~~~  352 (373)
T 1hz4_A          334 IEG--EAMAQQLRQLIQLNTL  352 (373)
T ss_dssp             TTH--HHHHHHHHHHHHTTCS
T ss_pred             Hcc--HHHHHHHHHHHhCCCC
Confidence            333  4555566666655554

>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=99.47  E-value=3.8e-12  Score=100.80  Aligned_cols=170  Identities=16%  Similarity=0.062  Sum_probs=133.0

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCC-chhhHHHHHHHH
Q 039362          195 EVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQS-DVLIWNAMIGGL  273 (440)
Q Consensus       195 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~  273 (440)
                      ...+..+...+...|++++|...++.+.+.. +.+...+..+..++...|++++|...++++.+..| +...+..+...+
T Consensus         8 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~   86 (186)
T 3as5_A            8 QVYYRDKGISHAKAGRYSQAVMLLEQVYDAD-AFDVDVALHLGIAYVKTGAVDRGTELLERSLADAPDNVKVATVLGLTY   86 (186)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHTTTCCTT-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-ccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHH
Confidence            3456777888899999999999999988765 56788899999999999999999999999987766 577888899999


Q ss_pred             HhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHH
Q 039362          274 AMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAY  353 (440)
Q Consensus       274 ~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  353 (440)
                      ...|++++|.+.++++.... +.+...+..+...+...|++++|...++++.+..  |+                     
T Consensus        87 ~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~--~~---------------------  142 (186)
T 3as5_A           87 VQVQKYDLAVPLLIKVAEAN-PINFNVRFRLGVALDNLGRFDEAIDSFKIALGLR--PN---------------------  142 (186)
T ss_dssp             HHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TT---------------------
T ss_pred             HHhcCHHHHHHHHHHHHhcC-cHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcC--cc---------------------
Confidence            99999999999999998774 4566677778888888888888888888877643  21                     


Q ss_pred             HHHhcCCCCccHhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCC
Q 039362          354 EFICQMPLEPTASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHD  399 (440)
Q Consensus       354 ~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~  399 (440)
                                +...+..++..+...|++++|...++++.+..|.++
T Consensus       143 ----------~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~  178 (186)
T 3as5_A          143 ----------EGKVHRAIAFSYEQMGRHEEALPHFKKANELDEGAS  178 (186)
T ss_dssp             ----------CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHCCC
T ss_pred             ----------chHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCch
Confidence                      223444555555666666666666666666655544

>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=99.44  E-value=3.6e-12  Score=104.87  Aligned_cols=194  Identities=13%  Similarity=-0.052  Sum_probs=151.6

Q ss_pred             CCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhcC--CchhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHH
Q 039362          227 SLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQ--SDVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGL  304 (440)
Q Consensus       227 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l  304 (440)
                      +.++..+......+...|++++|+..|+++.+..  ++...+..+..++...|++++|+..+++..+.. +.+...+..+
T Consensus         4 ~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l   82 (228)
T 4i17_A            4 TTDPNQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKN-YNLANAYIGK   82 (228)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT-CSHHHHHHHH
T ss_pred             ccCHHHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhC-cchHHHHHHH
Confidence            3456788888999999999999999999988765  566777778889999999999999999988764 3456678888


Q ss_pred             HHHHHcCCChHHHHHHHHHHhhcCCCCC-c-------chHHHHHHHHHhcCCHHHHHHHHhcC-CCCcc---HhHHHHHH
Q 039362          305 LSACAHGGLVMEAWYFFKSLGKRGMVPK-S-------EHYACMVDALSRAGQVTEAYEFICQM-PLEPT---ASMLGSLL  372 (440)
Q Consensus       305 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~-------~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p~---~~~~~~l~  372 (440)
                      ...+...|++++|+..+++..+..  |+ .       ..|..+...+...|++++|++.+++. ...|+   ...+..+.
T Consensus        83 ~~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~l~  160 (228)
T 4i17_A           83 SAAYRDMKNNQEYIATLTEGIKAV--PGNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDVTSKKWKTDALYSLG  160 (228)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSSCHHHHHHHHHHHH
T ss_pred             HHHHHHcccHHHHHHHHHHHHHHC--CCcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhcCCCcccHHHHHHHH
Confidence            999999999999999999998864  33 3       34777788888999999999999887 66776   46677777


Q ss_pred             HHHHhcCChhHHHHHHHHHHhcCCCCCchHHHHHHHHHhccChHHHHHHHHHHHhcCC
Q 039362          373 TGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEARTTREAMETRGV  430 (440)
Q Consensus       373 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  430 (440)
                      .++...     +..+++++....+.++..+...  .....+.+++|...+++..+..+
T Consensus       161 ~~~~~~-----~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~~~~A~~~~~~a~~l~p  211 (228)
T 4i17_A          161 VLFYNN-----GADVLRKATPLASSNKEKYASE--KAKADAAFKKAVDYLGEAVTLSP  211 (228)
T ss_dssp             HHHHHH-----HHHHHHHHGGGTTTCHHHHHHH--HHHHHHHHHHHHHHHHHHHHHCT
T ss_pred             HHHHHH-----HHHHHHHHHhcccCCHHHHHHH--HHHHHHHHHHHHHHHHHHhhcCC
Confidence            777544     4456777777776664444333  34456778999999999988654

>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=99.43  E-value=1.3e-11  Score=117.59  Aligned_cols=164  Identities=10%  Similarity=0.007  Sum_probs=106.5

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHH
Q 039362          160 VVSWSALIDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDM  239 (440)
Q Consensus       160 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  239 (440)
                      ..+|+.+...|.+.|++++|++.|++.++.. +-+...+..+..++.+.|++++|+..|++.++.+ +.+...+..+..+
T Consensus         9 a~al~nLG~~~~~~G~~~eAi~~~~kAl~l~-P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l~-P~~~~a~~nLg~~   86 (723)
T 4gyw_A            9 ADSLNNLANIKREQGNIEEAVRLYRKALEVF-PEFAAAHSNLASVLQQQGKLQEALMHYKEAIRIS-PTFADAYSNMGNT   86 (723)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHH
Confidence            4456666666667777777777776666553 2345566666666667777777777777666665 5556666667777


Q ss_pred             HHhcCCHHHHHHHHhhhhhcCC-chhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHH
Q 039362          240 YAKCGAIKEALIVFHGVEKHQS-DVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAW  318 (440)
Q Consensus       240 ~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~  318 (440)
                      |...|++++|+..|++..+..| +...|+.+...|...|++++|++.|++..+.. +-+...+..+..++...|++++|.
T Consensus        87 l~~~g~~~~A~~~~~kAl~l~P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~-P~~~~a~~~L~~~l~~~g~~~~A~  165 (723)
T 4gyw_A           87 LKEMQDVQGALQCYTRAIQINPAFADAHSNLASIHKDSGNIPEAIASYRTALKLK-PDFPDAYCNLAHCLQIVCDWTDYD  165 (723)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCCTTHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHhhhhhHHHhcccHHHHH
Confidence            7777777777777776666555 35566666777777777777777777766653 333456666666666777777766


Q ss_pred             HHHHHHhh
Q 039362          319 YFFKSLGK  326 (440)
Q Consensus       319 ~~~~~~~~  326 (440)
                      +.++++.+
T Consensus       166 ~~~~kal~  173 (723)
T 4gyw_A          166 ERMKKLVS  173 (723)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            66666543

>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=99.42  E-value=1.9e-11  Score=103.86  Aligned_cols=198  Identities=15%  Similarity=0.049  Sum_probs=100.4

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHc------C-CCCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhc--------C
Q 039362          196 VTLVSVLCACAHLGALDQGRMMLRYMIDK------G-LSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKH--------Q  260 (440)
Q Consensus       196 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--------~  260 (440)
                      .++..+...+...|++++|...++++.+.      + .+....++..+..+|...|++++|...|.++...        .
T Consensus        44 ~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~  123 (283)
T 3edt_B           44 TMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKFH  123 (283)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTC
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHcCCCC
Confidence            34455555555556666665555555433      1 1223345555666666666666666666655433        1


Q ss_pred             C-chhhHHHHHHHHHhcCChHHHHHHHHHHHHc------CCCc-cHhhHHHHHHHHHcCCChHHHHHHHHHHhhc-----
Q 039362          261 S-DVLIWNAMIGGLAMHGFVKESLELFTEMQIV------GITP-DEITFLGLLSACAHGGLVMEAWYFFKSLGKR-----  327 (440)
Q Consensus       261 ~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~------~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----  327 (440)
                      | ....+..+...+...|++++|...++++.+.      +..| ...++..+...+...|++++|...++++.+.     
T Consensus       124 ~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~  203 (283)
T 3edt_B          124 PDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAKTKNNLASCYLKQGKYQDAETLYKEILTRAHEKE  203 (283)
T ss_dssp             HHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhc
Confidence            2 2345666666677777777777777666543      1122 2345666667777777777777777766653     


Q ss_pred             --CCCCC-cchHHHHHHHHHhcCC------HHHHHHHHhcCC-CCc-cHhHHHHHHHHHHhcCChhHHHHHHHHHHh
Q 039362          328 --GMVPK-SEHYACMVDALSRAGQ------VTEAYEFICQMP-LEP-TASMLGSLLTGCMNHGKLDLAEIVGKKLVE  393 (440)
Q Consensus       328 --~~~~~-~~~~~~l~~~~~~~~~------~~~a~~~~~~~~-~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  393 (440)
                        ...+. ...+..+...+...+.      +..+...++... ..| ...++..+...+...|++++|..+++++++
T Consensus       204 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  280 (283)
T 3edt_B          204 FGSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACKVDSPTVNTTLRSLGALYRRQGKLEAAHTLEDCASR  280 (283)
T ss_dssp             SSSCCSSCCCHHHHHHHHHHTTCCCCC------------CCCCCCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             CCCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence              11222 2223333222222222      233333333332 222 224455566666666666666666666554

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.41  E-value=1.1e-11  Score=105.97  Aligned_cols=195  Identities=11%  Similarity=-0.036  Sum_probs=109.8

Q ss_pred             HHHhcCChHHHHHHHHHHHHc----CCCC-chhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCC---c----hhhHHHHHH
Q 039362          204 ACAHLGALDQGRMMLRYMIDK----GLSL-TLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQS---D----VLIWNAMIG  271 (440)
Q Consensus       204 ~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~---~----~~~~~~l~~  271 (440)
                      .+...|++++|...|.+..+.    +.++ ...++..+..+|...|++++|+..|++.....+   +    ..+++.+..
T Consensus        46 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~  125 (292)
T 1qqe_A           46 IYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELGE  125 (292)
T ss_dssp             HHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            344556666666666655432    2111 134556666666666666666666666554322   1    235666666


Q ss_pred             HHHhc-CChHHHHHHHHHHHHcCC---Cc-c-HhhHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCCcc------hHHHH
Q 039362          272 GLAMH-GFVKESLELFTEMQIVGI---TP-D-EITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSE------HYACM  339 (440)
Q Consensus       272 ~~~~~-~~~~~a~~~~~~m~~~~~---~p-~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~------~~~~l  339 (440)
                      .|... |++++|+..|++..+...   .+ . ..++..+...+.+.|++++|+..|+++.+........      .+..+
T Consensus       126 ~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~l  205 (292)
T 1qqe_A          126 ILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLKK  205 (292)
T ss_dssp             HHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHHH
T ss_pred             HHHHhhcCHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhcCCcccHHHHHHHHHH
Confidence            77774 777777777777654310   00 0 2346666777777777777777777777643221111      34556


Q ss_pred             HHHHHhcCCHHHHHHHHhcC-CCCccHh------HHHHHHHHHH--hcCChhHHHHHHHHHHhcCCCC
Q 039362          340 VDALSRAGQVTEAYEFICQM-PLEPTAS------MLGSLLTGCM--NHGKLDLAEIVGKKLVELQPDH  398 (440)
Q Consensus       340 ~~~~~~~~~~~~a~~~~~~~-~~~p~~~------~~~~l~~~~~--~~g~~~~a~~~~~~~~~~~~~~  398 (440)
                      ..++...|++++|...+++. .+.|+..      .+..++.++.  ..+++++|+..|+++..++|..
T Consensus       206 g~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~~l~~l~~~~~~~~~~~~~~A~~~~~~~~~l~~~~  273 (292)
T 1qqe_A          206 GLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNFMRLDKWK  273 (292)
T ss_dssp             HHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTCTTTHHHHHHHHTTSSCCCHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHhccCCccHHHH
Confidence            66677777777777777776 4445321      2333444443  3455667777776666655544

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=99.39  E-value=1.7e-10  Score=96.66  Aligned_cols=181  Identities=13%  Similarity=0.108  Sum_probs=130.2

Q ss_pred             HHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCC---chhhHHHHHHHHHhcCChHHHHHHHHHHH
Q 039362          214 GRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQS---DVLIWNAMIGGLAMHGFVKESLELFTEMQ  290 (440)
Q Consensus       214 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~m~  290 (440)
                      +...+++..+.+ +++...+..+..++...|++++|++++.+.....|   +...+..++..+.+.|+.+.|.+.+++|.
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            566777666655 45555556778888888888888888888765443   45667778888999999999999999987


Q ss_pred             HcCCCc-----cHhhHHHHHHHHH--c--CCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcC-C
Q 039362          291 IVGITP-----DEITFLGLLSACA--H--GGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQM-P  360 (440)
Q Consensus       291 ~~~~~p-----~~~~~~~l~~~~~--~--~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~  360 (440)
                      +.  .|     +..+...+..++.  .  .++..+|..+|+++.+..  |+......+..++.+.|++++|.+.++.+ .
T Consensus       164 ~~--~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~~--p~~~~~~lLln~~~~~g~~~eAe~~L~~l~~  239 (310)
T 3mv2_B          164 NA--IEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQTF--PTWKTQLGLLNLHLQQRNIAEAQGIVELLLS  239 (310)
T ss_dssp             HH--SCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTTS--CSHHHHHHHHHHHHHHTCHHHHHHHHHHHHS
T ss_pred             hc--CccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhC--CCcccHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            75  56     3555666665532  2  348899999999987642  44223334444788999999999998765 2


Q ss_pred             C----------Cc-cHhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCCch
Q 039362          361 L----------EP-TASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGR  401 (440)
Q Consensus       361 ~----------~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~  401 (440)
                      .          .| ++.++..++......|+  +|.++++++.+..|+++.+
T Consensus       240 ~~p~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~~~P~hp~i  289 (310)
T 3mv2_B          240 DYYSVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVKLDHEHAFI  289 (310)
T ss_dssp             HHHHTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHHTTCCCHHH
T ss_pred             hcccccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHHhCCCChHH
Confidence            2          13 55667566666666776  8899999999999999743

>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=99.37  E-value=3.5e-12  Score=108.46  Aligned_cols=223  Identities=12%  Similarity=0.059  Sum_probs=156.8

Q ss_pred             HhcCChHHHHHHHHHHHHc-------CCCCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhc--------CC-chhhHHHH
Q 039362          206 AHLGALDQGRMMLRYMIDK-------GLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKH--------QS-DVLIWNAM  269 (440)
Q Consensus       206 ~~~~~~~~a~~~~~~~~~~-------~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--------~~-~~~~~~~l  269 (440)
                      ...|++++|...+++..+.       ..+....++..+..+|...|++++|+..++++...        .| ...++..+
T Consensus        12 ~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l   91 (283)
T 3edt_B           12 SGLVPRGSAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNL   91 (283)
T ss_dssp             -CCSCSSSHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHH
Confidence            3556777777666665542       22345677889999999999999999999988754        23 35678889


Q ss_pred             HHHHHhcCChHHHHHHHHHHHHc------CC-CccHhhHHHHHHHHHcCCChHHHHHHHHHHhhc------CCCC-Ccch
Q 039362          270 IGGLAMHGFVKESLELFTEMQIV------GI-TPDEITFLGLLSACAHGGLVMEAWYFFKSLGKR------GMVP-KSEH  335 (440)
Q Consensus       270 ~~~~~~~~~~~~a~~~~~~m~~~------~~-~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~~~~-~~~~  335 (440)
                      ...+...|++++|...++++...      .. +....++..+...+...|++++|...++++.+.      +..| ...+
T Consensus        92 ~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  171 (283)
T 3edt_B           92 AVLYGKRGKYKEAEPLCKRALEIREKVLGKFHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAKT  171 (283)
T ss_dssp             HHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHH
T ss_pred             HHHHHHhccHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHH
Confidence            99999999999999999998764      11 233567888899999999999999999998875      1122 3456


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHhcC-C---------CCccH-hHHHHHHHHHHhcCCh------hHHHHHHHHHHhcCCCC
Q 039362          336 YACMVDALSRAGQVTEAYEFICQM-P---------LEPTA-SMLGSLLTGCMNHGKL------DLAEIVGKKLVELQPDH  398 (440)
Q Consensus       336 ~~~l~~~~~~~~~~~~a~~~~~~~-~---------~~p~~-~~~~~l~~~~~~~g~~------~~a~~~~~~~~~~~~~~  398 (440)
                      +..+...|...|++++|.+.+++. .         ..+.. ..+..+.......+..      ..+...++......|..
T Consensus       172 ~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  251 (283)
T 3edt_B          172 KNNLASCYLKQGKYQDAETLYKEILTRAHEKEFGSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACKVDSPTV  251 (283)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHSSSCCSSCCCHHHHHHHHHHTTCCCCC------------CCCCCCHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcCCCCHHH
Confidence            788899999999999999999876 1         12222 3344444333333332      23333333222223444


Q ss_pred             CchHHHHHHHHHhccChHHHHHHHHHHHhc
Q 039362          399 DGRYVGLSNVYAIFKRWDEARTTREAMETR  428 (440)
Q Consensus       399 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  428 (440)
                      ..++..++.+|...|++++|.+++++.++.
T Consensus       252 ~~~~~~la~~~~~~g~~~~A~~~~~~al~~  281 (283)
T 3edt_B          252 NTTLRSLGALYRRQGKLEAAHTLEDCASRN  281 (283)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            457889999999999999999999998764

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.36  E-value=2.4e-11  Score=102.12  Aligned_cols=205  Identities=9%  Similarity=-0.031  Sum_probs=122.1

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCc---hhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCCc----hhhH
Q 039362          194 NEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLT---LPLQTSLIDMYAKCGAIKEALIVFHGVEKHQSD----VLIW  266 (440)
Q Consensus       194 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~----~~~~  266 (440)
                      +...+......+...|++++|...|+.+.+.. +.+   ...+..+..+|...|++++|+..|+++.+..|+    ...+
T Consensus        14 ~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~   92 (261)
T 3qky_A           14 SPQEAFERAMEFYNQGKYDRAIEYFKAVFTYG-RTHEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQAE   92 (261)
T ss_dssp             SHHHHHHHHHHHHHTTCHHHHHHHHHHHGGGC-SCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHH
T ss_pred             CHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-CCCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHHH
Confidence            44455556666666777777777777766654 323   455666666667777777777777766655442    2334


Q ss_pred             HHHHHHHHh--------cCChHHHHHHHHHHHHcCCCccH-hhHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCCcchHH
Q 039362          267 NAMIGGLAM--------HGFVKESLELFTEMQIVGITPDE-ITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYA  337 (440)
Q Consensus       267 ~~l~~~~~~--------~~~~~~a~~~~~~m~~~~~~p~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  337 (440)
                      ..+..++..        .|++++|+..|+++.+..  |+. .....+..              +..+...    ....+.
T Consensus        93 ~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~--p~~~~~~~a~~~--------------~~~~~~~----~~~~~~  152 (261)
T 3qky_A           93 YERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDRY--PNHELVDDATQK--------------IRELRAK----LARKQY  152 (261)
T ss_dssp             HHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHHC--TTCTTHHHHHHH--------------HHHHHHH----HHHHHH
T ss_pred             HHHHHHHHHhcccccccchhHHHHHHHHHHHHHHC--cCchhHHHHHHH--------------HHHHHHH----HHHHHH
Confidence            455555655        666666666666666542  322 11111100              0000000    001134


Q ss_pred             HHHHHHHhcCCHHHHHHHHhcC-CCCcc----HhHHHHHHHHHHhc----------CChhHHHHHHHHHHhcCCCCCch-
Q 039362          338 CMVDALSRAGQVTEAYEFICQM-PLEPT----ASMLGSLLTGCMNH----------GKLDLAEIVGKKLVELQPDHDGR-  401 (440)
Q Consensus       338 ~l~~~~~~~~~~~~a~~~~~~~-~~~p~----~~~~~~l~~~~~~~----------g~~~~a~~~~~~~~~~~~~~~~~-  401 (440)
                      .+...|.+.|++++|+..|+++ ...|+    ...+..+..++...          |++++|+..++++++..|+++.+ 
T Consensus       153 ~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~  232 (261)
T 3qky_A          153 EAARLYERRELYEAAAVTYEAVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQIFPDSPLLR  232 (261)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHHCTTCTHHH
T ss_pred             HHHHHHHHccCHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHHCCCChHHH
Confidence            5677788888888888888877 33333    35666777777755          88899999999999999988743 


Q ss_pred             --HHHHHHHHHhccChHHHH
Q 039362          402 --YVGLSNVYAIFKRWDEAR  419 (440)
Q Consensus       402 --~~~l~~~~~~~g~~~~A~  419 (440)
                        ...+...+.+.|+++++.
T Consensus       233 ~a~~~l~~~~~~~~~~~~~~  252 (261)
T 3qky_A          233 TAEELYTRARQRLTELEGDA  252 (261)
T ss_dssp             HHHHHHHHHHHHHHHHHTCT
T ss_pred             HHHHHHHHHHHHHHHhhhhh
Confidence              444555555555555443

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=99.36  E-value=1.5e-10  Score=96.88  Aligned_cols=241  Identities=11%  Similarity=0.033  Sum_probs=170.0

Q ss_pred             HHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHH
Q 039362          168 DGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIK  247 (440)
Q Consensus       168 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  247 (440)
                      +-..-.|++..++.-..++.   ...+......+.+++...|++...         ..-.|....+..+...+ ..+   
T Consensus        21 kn~fy~G~yq~~i~e~~~~~---~~~~~~~~~~~~Rs~iAlg~~~~~---------~~~~~~~~a~~~la~~~-~~~---   84 (310)
T 3mv2_B           21 KQNYYTGNFVQCLQEIEKFS---KVTDNTLLFYKAKTLLALGQYQSQ---------DPTSKLGKVLDLYVQFL-DTK---   84 (310)
T ss_dssp             HHHHTTTCHHHHTHHHHTSS---CCCCHHHHHHHHHHHHHTTCCCCC---------CSSSTTHHHHHHHHHHH-TTT---
T ss_pred             HHHHHhhHHHHHHHHHHhcC---ccchHHHHHHHHHHHHHcCCCccC---------CCCCHHHHHHHHHHHHh-ccc---
Confidence            44456788888877433321   122233444566788888876632         12233333444444433 322   


Q ss_pred             HHHHHHhhhhhc-CCchhhHHHHHHHHHhcCChHHHHHHHHHHHHcCC-CccHhhHHHHHHHHHcCCChHHHHHHHHHHh
Q 039362          248 EALIVFHGVEKH-QSDVLIWNAMIGGLAMHGFVKESLELFTEMQIVGI-TPDEITFLGLLSACAHGGLVMEAWYFFKSLG  325 (440)
Q Consensus       248 ~A~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~-~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  325 (440)
                       |+..|++.... .++...+..+..++...|++++|++++.+....+. .-+...+..++..+.+.|+.+.|.+.+++|.
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 -NIEELENLLKDKQNSPYELYLLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDNYT  163 (310)
T ss_dssp             -CCHHHHHTTTTSCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             -HHHHHHHHHhcCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence             67788877654 35556667888899999999999999999876552 1355678888999999999999999999998


Q ss_pred             hcCCCC-----CcchHHHHHHH--HHhcC--CHHHHHHHHhcC-CCCccHhHHHHHHHHHHhcCChhHHHHHHHHHHhc-
Q 039362          326 KRGMVP-----KSEHYACMVDA--LSRAG--QVTEAYEFICQM-PLEPTASMLGSLLTGCMNHGKLDLAEIVGKKLVEL-  394 (440)
Q Consensus       326 ~~~~~~-----~~~~~~~l~~~--~~~~~--~~~~a~~~~~~~-~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-  394 (440)
                      +.  .|     +..+...++.+  ....|  ++.+|..+|+++ ...|+..+...++.++.+.|++++|.+.++.+.+. 
T Consensus       164 ~~--~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~~p~~~~~~lLln~~~~~g~~~eAe~~L~~l~~~~  241 (310)
T 3mv2_B          164 NA--IEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQTFPTWKTQLGLLNLHLQQRNIAEAQGIVELLLSDY  241 (310)
T ss_dssp             HH--SCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTTSCSHHHHHHHHHHHHHHTCHHHHHHHHHHHHSHH
T ss_pred             hc--CccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHhc
Confidence            85  45     35555666666  33334  899999999999 54565333344455888999999999999988876 


Q ss_pred             ---------CCCCCchHHHHHHHHHhccChHHHHHHHHHHHhcC
Q 039362          395 ---------QPDHDGRYVGLSNVYAIFKRWDEARTTREAMETRG  429 (440)
Q Consensus       395 ---------~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  429 (440)
                               +|.++.++..++......|+  +|.++++++.+..
T Consensus       242 p~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~~~  283 (310)
T 3mv2_B          242 YSVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVKLD  283 (310)
T ss_dssp             HHTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHHTT
T ss_pred             ccccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHHhC
Confidence                     48888888777777777787  8999999998765

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.34  E-value=2e-10  Score=98.17  Aligned_cols=209  Identities=12%  Similarity=0.018  Sum_probs=146.4

Q ss_pred             hHHHHHHHhhCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhc----CCCCC-HHHHHHHHHHHHhcCChHHHHHHHH
Q 039362          145 MNMARQVFELMPERNVVSWSALIDGYVKCGDYKEALVIFEEMRDV----GSKAN-EVTLVSVLCACAHLGALDQGRMMLR  219 (440)
Q Consensus       145 ~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~  219 (440)
                      +++|...|.+.           ...|...|++++|...|++....    |-+++ ..++..+..++...|++++|...++
T Consensus        33 ~~~A~~~~~~a-----------~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~  101 (292)
T 1qqe_A           33 FEEAADLCVQA-----------ATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLE  101 (292)
T ss_dssp             HHHHHHHHHHH-----------HHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHH-----------HHHHHHcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            56665555443           45667778888888887776443    21121 3567778888888888888888888


Q ss_pred             HHHHcCC---CC--chhhHHHHHHHHHhc-CCHHHHHHHHhhhhhcCCc-------hhhHHHHHHHHHhcCChHHHHHHH
Q 039362          220 YMIDKGL---SL--TLPLQTSLIDMYAKC-GAIKEALIVFHGVEKHQSD-------VLIWNAMIGGLAMHGFVKESLELF  286 (440)
Q Consensus       220 ~~~~~~~---~~--~~~~~~~l~~~~~~~-g~~~~A~~~~~~~~~~~~~-------~~~~~~l~~~~~~~~~~~~a~~~~  286 (440)
                      +..+...   .+  ...++..+..+|... |++++|+..|++.....|+       ..++..+...+...|++++|+..|
T Consensus       102 ~Al~l~~~~g~~~~~a~~~~~lg~~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~  181 (292)
T 1qqe_A          102 NAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIY  181 (292)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHhCCHHHHHHHH
Confidence            7765421   11  134677888899986 9999999999988765332       346788899999999999999999


Q ss_pred             HHHHHcCCCccH------hhHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCCcc------hHHHHHHHHH--hcCCHHHH
Q 039362          287 TEMQIVGITPDE------ITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSE------HYACMVDALS--RAGQVTEA  352 (440)
Q Consensus       287 ~~m~~~~~~p~~------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~------~~~~l~~~~~--~~~~~~~a  352 (440)
                      ++..+.......      ..+..+..++...|++++|...|++..+.  .|+..      .+..++.++.  ..+++++|
T Consensus       182 ~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l--~p~~~~~~~~~~l~~l~~~~~~~~~~~~~~A  259 (292)
T 1qqe_A          182 SKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSE--DPNFADSRESNFLKSLIDAVNEGDSEQLSEH  259 (292)
T ss_dssp             HHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC-----------HHHHHHHHHHHHTTCTTTHHHH
T ss_pred             HHHHHHHhcCCcccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCCCCcHHHHHHHHHHHHHHcCCHHHHHHH
Confidence            998876422221      14667777888999999999999998874  23211      2344555664  45779999


Q ss_pred             HHHHhcC-CCCccHh
Q 039362          353 YEFICQM-PLEPTAS  366 (440)
Q Consensus       353 ~~~~~~~-~~~p~~~  366 (440)
                      +..|+++ .+.|...
T Consensus       260 ~~~~~~~~~l~~~~~  274 (292)
T 1qqe_A          260 CKEFDNFMRLDKWKI  274 (292)
T ss_dssp             HHHHTTSSCCCHHHH
T ss_pred             HHHhccCCccHHHHH
Confidence            9999887 6666553

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=99.30  E-value=5.9e-10  Score=91.21  Aligned_cols=203  Identities=12%  Similarity=-0.004  Sum_probs=124.7

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC--chhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCCchh----hHHHH
Q 039362          196 VTLVSVLCACAHLGALDQGRMMLRYMIDKGLSL--TLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQSDVL----IWNAM  269 (440)
Q Consensus       196 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~----~~~~l  269 (440)
                      ..+..+...+...|++++|...|+.+.+.....  ....+..++.+|.+.|++++|+..|+++.+..|+..    .+..+
T Consensus         5 ~~~~~~a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~P~~~~~~~a~~~~   84 (225)
T 2yhc_A            5 NEIYATAQQKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVMYMR   84 (225)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCcHHHHHHHH
Confidence            344455566777777777777777777654211  134566677777777777777777777776655432    23333


Q ss_pred             HHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCCcc-hHHHHHHHHHhcCC
Q 039362          270 IGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSE-HYACMVDALSRAGQ  348 (440)
Q Consensus       270 ~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~  348 (440)
                      ..++...+..     .+            ..|..+...+...|++++|...|+++++..  |+.. .+......    +.
T Consensus        85 g~~~~~~~~~-----~~------------~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~--P~~~~a~~a~~~l----~~  141 (225)
T 2yhc_A           85 GLTNMALDDS-----AL------------QGFFGVDRSDRDPQQARAAFSDFSKLVRGY--PNSQYTTDATKRL----VF  141 (225)
T ss_dssp             HHHHHHHHC-------------------------------CCHHHHHHHHHHHHHHTTC--TTCTTHHHHHHHH----HH
T ss_pred             HHHHHhhhhh-----hh------------hhhhccchhhcCcHHHHHHHHHHHHHHHHC--cCChhHHHHHHHH----HH
Confidence            3344332210     00            012222333445788899999999888753  4332 22221111    00


Q ss_pred             HHHHHHHHhcCCCCccHhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCC---chHHHHHHHHHhccChHHHHHHHHHH
Q 039362          349 VTEAYEFICQMPLEPTASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHD---GRYVGLSNVYAIFKRWDEARTTREAM  425 (440)
Q Consensus       349 ~~~a~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~---~~~~~l~~~~~~~g~~~~A~~~~~~~  425 (440)
                      .....           ......+...+.+.|++++|+..|+++++..|.++   .++..++.+|.+.|++++|.+.++.+
T Consensus       142 ~~~~~-----------~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l  210 (225)
T 2yhc_A          142 LKDRL-----------AKYEYSVAEYYTERGAWVAVVNRVEGMLRDYPDTQATRDALPLMENAYRQMQMNAQAEKVAKII  210 (225)
T ss_dssp             HHHHH-----------HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHH-----------HHHHHHHHHHHHHcCcHHHHHHHHHHHHHHCcCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHH
Confidence            00000           11123566778899999999999999999999876   46889999999999999999999999


Q ss_pred             HhcCCcc
Q 039362          426 ETRGVKK  432 (440)
Q Consensus       426 ~~~~~~~  432 (440)
                      ...+...
T Consensus       211 ~~~~~~~  217 (225)
T 2yhc_A          211 AANSSNT  217 (225)
T ss_dssp             HHCCSCC
T ss_pred             HhhCCCc
Confidence            8876544

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=99.29  E-value=2.1e-10  Score=92.61  Aligned_cols=128  Identities=5%  Similarity=-0.092  Sum_probs=92.2

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCC
Q 039362          269 MIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQ  348 (440)
Q Consensus       269 l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  348 (440)
                      +...+.+.|++++|+..|++..+.. +.+...+..+...+...|++++|+..|+++.+.. +.+...+..+...|...|+
T Consensus        60 lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~~  137 (208)
T 3urz_A           60 LALAYKKNRNYDKAYLFYKELLQKA-PNNVDCLEACAEMQVCRGQEKDALRMYEKILQLE-ADNLAANIFLGNYYYLTAE  137 (208)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHHhH
Confidence            7778888888888888888887764 4456678888888888888888888888888864 2245667777777765543


Q ss_pred             --HHHHHHHHhcC-CCCccHhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCC
Q 039362          349 --VTEAYEFICQM-PLEPTASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDH  398 (440)
Q Consensus       349 --~~~a~~~~~~~-~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~  398 (440)
                        ...+...++.. ...|....+.....++...|++++|+..|++++++.|.+
T Consensus       138 ~~~~~~~~~~~~~~~~~~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~P~~  190 (208)
T 3urz_A          138 QEKKKLETDYKKLSSPTKMQYARYRDGLSKLFTTRYEKARNSLQKVILRFPST  190 (208)
T ss_dssp             HHHHHHHHHHC---CCCHHHHHHHHHHHHHHHHHTHHHHHHHHHHHTTTSCCH
T ss_pred             HHHHHHHHHHHHHhCCCchhHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCH
Confidence              44556666666 333333445556666777889999999999999998864

>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=99.26  E-value=4.9e-10  Score=107.28  Aligned_cols=171  Identities=13%  Similarity=-0.005  Sum_probs=121.3

Q ss_pred             HhcCChHHHHHHHHHHH--------HcCCCCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCC-chhhHHHHHHHHHhc
Q 039362          206 AHLGALDQGRMMLRYMI--------DKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQS-DVLIWNAMIGGLAMH  276 (440)
Q Consensus       206 ~~~~~~~~a~~~~~~~~--------~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~  276 (440)
                      ...|++++|.+.+++..        +.. +.+...+..+..+|...|++++|+..|+++.+..| +...|..+..++...
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~~-p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~  480 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVDF-SESVELPLMEVRALLDLGDVAKATRKLDDLAERVGWRWRLVWYRAVAELLT  480 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------CC-TTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhccccccccc-ccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccCcchHHHHHHHHHHHHHc
Confidence            56778888888888776        433 55666777777888888888888888888776655 456777777788888


Q ss_pred             CChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHH
Q 039362          277 GFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFI  356 (440)
Q Consensus       277 ~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  356 (440)
                      |++++|+..|++..+.. +.+...+..+..++.+.|++++ +..|+++.+.. +.+...|..+..++.+.|++++|.+.|
T Consensus       481 g~~~~A~~~~~~al~l~-P~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~  557 (681)
T 2pzi_A          481 GDYDSATKHFTEVLDTF-PGELAPKLALAATAELAGNTDE-HKFYQTVWSTN-DGVISAAFGLARARSAEGDRVGAVRTL  557 (681)
T ss_dssp             TCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCChHH-HHHHHHHHHhC-CchHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            88888888888877663 3345667777777788888888 88888877754 124556777788888888888888888


Q ss_pred             hcC-CCCccH-hHHHHHHHHHHhcCC
Q 039362          357 CQM-PLEPTA-SMLGSLLTGCMNHGK  380 (440)
Q Consensus       357 ~~~-~~~p~~-~~~~~l~~~~~~~g~  380 (440)
                      +++ .+.|+. ..+..+..++...|+
T Consensus       558 ~~al~l~P~~~~a~~~~~~~~~~~~~  583 (681)
T 2pzi_A          558 DEVPPTSRHFTTARLTSAVTLLSGRS  583 (681)
T ss_dssp             HTSCTTSTTHHHHHHHHHHHTC----
T ss_pred             HhhcccCcccHHHHHHHHHHHHccCC
Confidence            887 566653 556666666655444

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.26  E-value=2.4e-10  Score=95.95  Aligned_cols=186  Identities=10%  Similarity=-0.069  Sum_probs=141.3

Q ss_pred             CCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCCc----hhhHHHHHHHHHhcCChHHHHHHHHHHHHcCC-C-ccHhh
Q 039362          227 SLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQSD----VLIWNAMIGGLAMHGFVKESLELFTEMQIVGI-T-PDEIT  300 (440)
Q Consensus       227 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~-~-p~~~~  300 (440)
                      +.+...+..+...+.+.|++++|+..|+++.+..|+    ...+..+..++...|++++|+..|++..+... . .....
T Consensus        12 ~~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a   91 (261)
T 3qky_A           12 HSSPQEAFERAMEFYNQGKYDRAIEYFKAVFTYGRTHEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQA   91 (261)
T ss_dssp             CSSHHHHHHHHHHHHHTTCHHHHHHHHHHHGGGCSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHH
T ss_pred             CCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHH
Confidence            455677778888999999999999999999887664    45778888899999999999999999987631 1 12345


Q ss_pred             HHHHHHHHHc--------CCChHHHHHHHHHHhhcCCCCCc-chHHHHHHHHHhcCCHHHHHHHHhcCCCCccHhHHHHH
Q 039362          301 FLGLLSACAH--------GGLVMEAWYFFKSLGKRGMVPKS-EHYACMVDALSRAGQVTEAYEFICQMPLEPTASMLGSL  371 (440)
Q Consensus       301 ~~~l~~~~~~--------~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~p~~~~~~~l  371 (440)
                      +..+..++..        .|++++|+..|+++.+..  |+. .....+.......+.               ....+..+
T Consensus        92 ~~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~--p~~~~~~~a~~~~~~~~~~---------------~~~~~~~l  154 (261)
T 3qky_A           92 EYERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDRY--PNHELVDDATQKIRELRAK---------------LARKQYEA  154 (261)
T ss_dssp             HHHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHHC--TTCTTHHHHHHHHHHHHHH---------------HHHHHHHH
T ss_pred             HHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHC--cCchhHHHHHHHHHHHHHH---------------HHHHHHHH
Confidence            6677777777        899999999999998863  432 222222111111111               11225677


Q ss_pred             HHHHHhcCChhHHHHHHHHHHhcCCCCCc---hHHHHHHHHHhc----------cChHHHHHHHHHHHhcC
Q 039362          372 LTGCMNHGKLDLAEIVGKKLVELQPDHDG---RYVGLSNVYAIF----------KRWDEARTTREAMETRG  429 (440)
Q Consensus       372 ~~~~~~~g~~~~a~~~~~~~~~~~~~~~~---~~~~l~~~~~~~----------g~~~~A~~~~~~~~~~~  429 (440)
                      ...+...|++++|+..|+++++..|.++.   .+..++.+|...          |++++|...++++++..
T Consensus       155 a~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~~  225 (261)
T 3qky_A          155 ARLYERRELYEAAAVTYEAVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQIF  225 (261)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHccCHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHHC
Confidence            88899999999999999999999998654   788889999877          89999999999998764

>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=99.25  E-value=8.8e-12  Score=94.81  Aligned_cols=140  Identities=8%  Similarity=-0.083  Sum_probs=92.9

Q ss_pred             HHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHH
Q 039362          273 LAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEA  352 (440)
Q Consensus       273 ~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  352 (440)
                      +...|++++|+..++...... +-+...+..+...|.+.|++++|+..|+++++.. +-+...|..+..+|...|++++|
T Consensus         7 ~~~~~~~e~ai~~~~~a~~~~-p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~~~~~~A   84 (150)
T 4ga2_A            7 RRSKADVERYIASVQGSTPSP-RQKSIKGFYFAKLYYEAKEYDLAKKYICTYINVQ-ERDPKAHRFLGLLYELEENTDKA   84 (150)
T ss_dssp             CCCHHHHHHHHHHHHHHSCSH-HHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHcChHHHHHHHHHHhcccC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCchHHH
Confidence            334456666666666554321 1123345556666666677777777777666643 12455666677777777777777


Q ss_pred             HHHHhcC-CCCc-cHhHHHHHHHHHHhcCChhHHHHH-HHHHHhcCCCCCchHHHHHHHHHhccC
Q 039362          353 YEFICQM-PLEP-TASMLGSLLTGCMNHGKLDLAEIV-GKKLVELQPDHDGRYVGLSNVYAIFKR  414 (440)
Q Consensus       353 ~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~-~~~~~~~~~~~~~~~~~l~~~~~~~g~  414 (440)
                      +..|++. .+.| +...+..+...+.+.|++++|.+. ++++++++|.++.+|......+...|+
T Consensus        85 ~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l~P~~~~~~~l~~~ll~~~G~  149 (150)
T 4ga2_A           85 VECYRRSVELNPTQKDLVLKIAELLCKNDVTDGRAKYWVERAAKLFPGSPAVYKLKEQLLDCEGE  149 (150)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHHSTTCHHHHHHHHHHHHTCCC
T ss_pred             HHHHHHHHHhCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCc
Confidence            7777766 4455 356777888888888888766554 588999999998888888888777764

>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=99.25  E-value=4.4e-11  Score=114.49  Aligned_cols=171  Identities=11%  Similarity=-0.107  Sum_probs=146.9

Q ss_pred             HhcCCHHHHHHHHhhhh--------hcCC-chhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcC
Q 039362          241 AKCGAIKEALIVFHGVE--------KHQS-DVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHG  311 (440)
Q Consensus       241 ~~~g~~~~A~~~~~~~~--------~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~  311 (440)
                      ...|++++|++.++++.        +..| +...+..+...+...|++++|+..|+++.+.. +.+...+..+..++...
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~~p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~  480 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVDFSESVELPLMEVRALLDLGDVAKATRKLDDLAERV-GWRWRLVWYRAVAELLT  480 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------CCTTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH-CCCHHHHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhcccccccccccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccC-cchHHHHHHHHHHHHHc
Confidence            77899999999999987        5555 56788889999999999999999999998864 44667888899999999


Q ss_pred             CChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcC-CCCc-cHhHHHHHHHHHHhcCChhHHHHHHH
Q 039362          312 GLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQM-PLEP-TASMLGSLLTGCMNHGKLDLAEIVGK  389 (440)
Q Consensus       312 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~  389 (440)
                      |++++|+..|+++.+.. +.+...+..+..+|.+.|++++ ++.|++. ...| +...+..+..++.+.|++++|+..|+
T Consensus       481 g~~~~A~~~~~~al~l~-P~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~  558 (681)
T 2pzi_A          481 GDYDSATKHFTEVLDTF-PGELAPKLALAATAELAGNTDE-HKFYQTVWSTNDGVISAAFGLARARSAEGDRVGAVRTLD  558 (681)
T ss_dssp             TCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCChHH-HHHHHHHHHhCCchHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            99999999999999864 2256788899999999999999 9999988 5555 45788999999999999999999999


Q ss_pred             HHHhcCCCCCchHHHHHHHHHhccC
Q 039362          390 KLVELQPDHDGRYVGLSNVYAIFKR  414 (440)
Q Consensus       390 ~~~~~~~~~~~~~~~l~~~~~~~g~  414 (440)
                      ++.+.+|.+..++..++.++...|+
T Consensus       559 ~al~l~P~~~~a~~~~~~~~~~~~~  583 (681)
T 2pzi_A          559 EVPPTSRHFTTARLTSAVTLLSGRS  583 (681)
T ss_dssp             TSCTTSTTHHHHHHHHHHHTC----
T ss_pred             hhcccCcccHHHHHHHHHHHHccCC
Confidence            9999999999999999999877655

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=99.24  E-value=4.3e-10  Score=90.76  Aligned_cols=184  Identities=10%  Similarity=0.024  Sum_probs=96.8

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCH-HHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHH
Q 039362          162 SWSALIDGYVKCGDYKEALVIFEEMRDVGSKANE-VTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMY  240 (440)
Q Consensus       162 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  240 (440)
                      .+......+...|++++|+..|++....  .|+. ..+.. .    ....              ...........+..+|
T Consensus         6 ~~~~~g~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~-~----~~~~--------------~~~~~~~~~~~lg~~~   64 (208)
T 3urz_A            6 EMLQKVSAAIEAGQNGQAVSYFRQTIAL--NIDRTEMYYW-T----NVDK--------------NSEISSKLATELALAY   64 (208)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH--CHHHHHHHHH-H----HSCT--------------TSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCChHHHHH-h----hhcc--------------hhhhhHHHHHHHHHHH
Confidence            3444555667778888888888877765  3332 22322 0    0000              0001112223366666


Q ss_pred             HhcCCHHHHHHHHhhhhhcCC-chhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCC--hHHH
Q 039362          241 AKCGAIKEALIVFHGVEKHQS-DVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGL--VMEA  317 (440)
Q Consensus       241 ~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~--~~~a  317 (440)
                      ...|++++|+..|++..+..| +...+..+...+...|++++|+..|++..+.. +.+..++..+...+...|.  .+.+
T Consensus        65 ~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~~~~~~~~  143 (208)
T 3urz_A           65 KKNRNYDKAYLFYKELLQKAPNNVDCLEACAEMQVCRGQEKDALRMYEKILQLE-ADNLAANIFLGNYYYLTAEQEKKKL  143 (208)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHHhHHHHHHH
Confidence            666666777666666666555 35566666666666677777777776666653 3344555555555544332  2333


Q ss_pred             HHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcC-CCCccHhHHH
Q 039362          318 WYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQM-PLEPTASMLG  369 (440)
Q Consensus       318 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p~~~~~~  369 (440)
                      ...++....  ..|....+.....++...|++++|...|++. .+.|+.....
T Consensus       144 ~~~~~~~~~--~~~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~P~~~~~~  194 (208)
T 3urz_A          144 ETDYKKLSS--PTKMQYARYRDGLSKLFTTRYEKARNSLQKVILRFPSTEAQK  194 (208)
T ss_dssp             HHHHC---C--CCHHHHHHHHHHHHHHHHHTHHHHHHHHHHHTTTSCCHHHHH
T ss_pred             HHHHHHHhC--CCchhHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCHHHHH
Confidence            444444322  1222223333445555667777777777765 5666654433

>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=99.24  E-value=1.9e-10  Score=85.51  Aligned_cols=127  Identities=21%  Similarity=0.183  Sum_probs=79.3

Q ss_pred             HHHHHHHHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcC-CC-CccHhHHHHHHHHHHhcC
Q 039362          302 LGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQM-PL-EPTASMLGSLLTGCMNHG  379 (440)
Q Consensus       302 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~-~p~~~~~~~l~~~~~~~g  379 (440)
                      ..+...+...|++++|..+++++.+.. +.+...+..+...+...|++++|...++++ .. ..+...+..++..+...|
T Consensus         5 ~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~   83 (136)
T 2fo7_A            5 YNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPRSAEAWYNLGNAYYKQG   83 (136)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTT
T ss_pred             HHHHHHHHHcCcHHHHHHHHHHHHHcC-CcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHCCCchHHHHHHHHHHHHhc
Confidence            334444444455555555555544432 113334444555555555555555555554 11 223455666777777888


Q ss_pred             ChhHHHHHHHHHHhcCCCCCchHHHHHHHHHhccChHHHHHHHHHHHhcC
Q 039362          380 KLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEARTTREAMETRG  429 (440)
Q Consensus       380 ~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  429 (440)
                      ++++|...++++.+..|.++..+..++.++...|++++|...++++.+..
T Consensus        84 ~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~  133 (136)
T 2fo7_A           84 DYDEAIEYYQKALELDPRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELD  133 (136)
T ss_dssp             CHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHS
T ss_pred             CHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHccHHHHHHHHHHHHccC
Confidence            88888888888888887777777888888888888888888888777643

>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=99.21  E-value=1.8e-09  Score=80.05  Aligned_cols=128  Identities=17%  Similarity=0.251  Sum_probs=71.0

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHH
Q 039362          162 SWSALIDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYA  241 (440)
Q Consensus       162 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  241 (440)
                      .|..+...+...|++++|..+++++...+ +.+...+..+...+...|++++|...++++.+.+ +.+...+..+...+.
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            34555566666666666666666665543 3344455555555666666666666666665544 334445555555555


Q ss_pred             hcCCHHHHHHHHhhhhhcCC-chhhHHHHHHHHHhcCChHHHHHHHHHHHH
Q 039362          242 KCGAIKEALIVFHGVEKHQS-DVLIWNAMIGGLAMHGFVKESLELFTEMQI  291 (440)
Q Consensus       242 ~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~  291 (440)
                      ..|++++|...++++....| +...+..+...+...|++++|...++++..
T Consensus        81 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~  131 (136)
T 2fo7_A           81 KQGDYDEAIEYYQKALELDPRSAEAWYNLGNAYYKQGDYDEAIEYYQKALE  131 (136)
T ss_dssp             TTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHH
T ss_pred             HhcCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHccHHHHHHHHHHHHc
Confidence            55555555555555554433 344445555555555555555555555544

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=99.21  E-value=7.1e-09  Score=87.81  Aligned_cols=231  Identities=9%  Similarity=-0.032  Sum_probs=151.4

Q ss_pred             hcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcC--ChHHHHHHHHHHHHcCCCCchhhHHHHHHHH----Hhc--
Q 039362          172 KCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLG--ALDQGRMMLRYMIDKGLSLTLPLQTSLIDMY----AKC--  243 (440)
Q Consensus       172 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~----~~~--  243 (440)
                      +....++|++++++++..+ +-+...++.--.++...+  ++++++..++.+...+ |.+..+|+.-..++    ...  
T Consensus        45 ~~e~s~~aL~~t~~~L~~n-P~~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~n-Pk~y~aW~~R~~iL~~~~~~l~~  122 (306)
T 3dra_A           45 AEEYSERALHITELGINEL-ASHYTIWIYRFNILKNLPNRNLYDELDWCEEIALDN-EKNYQIWNYRQLIIGQIMELNNN  122 (306)
T ss_dssp             TTCCSHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHC-TTCCHHHHHHHHHHHHHHHHTTT
T ss_pred             cCCCCHHHHHHHHHHHHHC-cHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHC-cccHHHHHHHHHHHHHHHHhccc
Confidence            3344567888888887763 334445566666666677  7888888888887776 55556665544444    444  


Q ss_pred             -CCHHHHHHHHhhhhhcCC-chhhHHHHHHHHHhcCChH--HHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCC------
Q 039362          244 -GAIKEALIVFHGVEKHQS-DVLIWNAMIGGLAMHGFVK--ESLELFTEMQIVGITPDEITFLGLLSACAHGGL------  313 (440)
Q Consensus       244 -g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~--~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~------  313 (440)
                       +++++++.+++.+.+..| +...|+...-.+.+.|.++  ++++.++++.+.. +-|...|+.-...+.+.+.      
T Consensus       123 ~~~~~~EL~~~~~~l~~~pkny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d-~~N~sAW~~R~~ll~~l~~~~~~~~  201 (306)
T 3dra_A          123 DFDPYREFDILEAMLSSDPKNHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTD-LKNNSAWSHRFFLLFSKKHLATDNT  201 (306)
T ss_dssp             CCCTHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHSSGGGCCHHH
T ss_pred             cCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhccccchhhh
Confidence             677888888888776655 5667777766677777777  7888888877765 4455566666556666665      


Q ss_pred             hHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHH-HHHHHhcC-CC----CccHhHHHHHHHHHHhcCChhHHHHH
Q 039362          314 VMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTE-AYEFICQM-PL----EPTASMLGSLLTGCMNHGKLDLAEIV  387 (440)
Q Consensus       314 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~-a~~~~~~~-~~----~p~~~~~~~l~~~~~~~g~~~~a~~~  387 (440)
                      ++++++.++.++...+ -|...|+.+...+.+.|+..+ +.++.+++ ..    ..+...+..++..+.+.|+.++|.++
T Consensus       202 ~~eEl~~~~~aI~~~p-~n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~~A~~~  280 (306)
T 3dra_A          202 IDEELNYVKDKIVKCP-QNPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYNESRTV  280 (306)
T ss_dssp             HHHHHHHHHHHHHHCS-SCHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCC-CCccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHHHHHHH
Confidence            6777777777777542 256667777777777776433 44566655 22    12445666677777777777777777


Q ss_pred             HHHHHh-cCCCCCchHHHHH
Q 039362          388 GKKLVE-LQPDHDGRYVGLS  406 (440)
Q Consensus       388 ~~~~~~-~~~~~~~~~~~l~  406 (440)
                      ++.+.+ .+|.....|...+
T Consensus       281 ~~~l~~~~Dpir~~yW~~~~  300 (306)
T 3dra_A          281 YDLLKSKYNPIRSNFWDYQI  300 (306)
T ss_dssp             HHHHHHTTCGGGHHHHHHHH
T ss_pred             HHHHHhccChHHHHHHHHHH
Confidence            777775 5777666555443

>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=99.21  E-value=1.5e-09  Score=87.73  Aligned_cols=161  Identities=11%  Similarity=-0.100  Sum_probs=100.0

Q ss_pred             chhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCC----ChHHHHHHHHHHhhcCCCCCcchHH
Q 039362          262 DVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGG----LVMEAWYFFKSLGKRGMVPKSEHYA  337 (440)
Q Consensus       262 ~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~----~~~~a~~~~~~~~~~~~~~~~~~~~  337 (440)
                      ++..+..+...|...+++++|+..|++..+.|   +...+..+...|.. +    ++++|..+|++..+.|   +...+.
T Consensus        17 ~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~-~g~~~~~~~A~~~~~~A~~~g---~~~a~~   89 (212)
T 3rjv_A           17 DRRAQYYLADTWVSSGDYQKAEYWAQKAAAQG---DGDALALLAQLKIR-NPQQADYPQARQLAEKAVEAG---SKSGEI   89 (212)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT---CHHHHHHHHHHTTS-STTSCCHHHHHHHHHHHHHTT---CHHHHH
T ss_pred             CHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc-CCCCCCHHHHHHHHHHHHHCC---CHHHHH
Confidence            44455555555555666666666666665543   23344445444544 4    6666666666665543   344555


Q ss_pred             HHHHHHHh----cCCHHHHHHHHhcC-CCCcc---HhHHHHHHHHHHh----cCChhHHHHHHHHHHhcCCCCCchHHHH
Q 039362          338 CMVDALSR----AGQVTEAYEFICQM-PLEPT---ASMLGSLLTGCMN----HGKLDLAEIVGKKLVELQPDHDGRYVGL  405 (440)
Q Consensus       338 ~l~~~~~~----~~~~~~a~~~~~~~-~~~p~---~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~l  405 (440)
                      .|...|..    .+++++|.++|++. ...|.   +..+..|...|..    .+++++|...|+++.+. |.++..+..+
T Consensus        90 ~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~-~~~~~a~~~L  168 (212)
T 3rjv_A           90 VLARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFKGSSSL-SRTGYAEYWA  168 (212)
T ss_dssp             HHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHT-SCTTHHHHHH
T ss_pred             HHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHc-CCCHHHHHHH
Confidence            56555655    56677777777666 33332   5666666666666    66778888888888777 5555577777


Q ss_pred             HHHHHhc-c-----ChHHHHHHHHHHHhcCC
Q 039362          406 SNVYAIF-K-----RWDEARTTREAMETRGV  430 (440)
Q Consensus       406 ~~~~~~~-g-----~~~~A~~~~~~~~~~~~  430 (440)
                      +.+|... |     ++++|...+++..+.|.
T Consensus       169 g~~y~~g~gg~~~~d~~~A~~~~~~A~~~g~  199 (212)
T 3rjv_A          169 GMMFQQGEKGFIEPNKQKALHWLNVSCLEGF  199 (212)
T ss_dssp             HHHHHHCBTTTBCCCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHcCCCCCCCCCHHHHHHHHHHHHHcCC
Confidence            7777653 3     77888888887777654

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=99.20  E-value=3.2e-08  Score=83.76  Aligned_cols=215  Identities=11%  Similarity=0.082  Sum_probs=148.0

Q ss_pred             ChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcC--CHHHHHHHHhhhhhcCC-chhhHHHHHHHH----Hhc---CCh
Q 039362          210 ALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCG--AIKEALIVFHGVEKHQS-DVLIWNAMIGGL----AMH---GFV  279 (440)
Q Consensus       210 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g--~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~----~~~---~~~  279 (440)
                      ..++|+..++.++..+ |.+..+++.-..++...|  ++++++.+++.+....| +..+|+.-...+    ...   +++
T Consensus        48 ~s~~aL~~t~~~L~~n-P~~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~nPk~y~aW~~R~~iL~~~~~~l~~~~~~  126 (306)
T 3dra_A           48 YSERALHITELGINEL-ASHYTIWIYRFNILKNLPNRNLYDELDWCEEIALDNEKNYQIWNYRQLIIGQIMELNNNDFDP  126 (306)
T ss_dssp             CSHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHCTTCCHHHHHHHHHHHHHHHHTTTCCCT
T ss_pred             CCHHHHHHHHHHHHHC-cHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHCcccHHHHHHHHHHHHHHHHhccccCCH
Confidence            3457777777777776 666667777777777777  88888888888776666 445555544444    444   677


Q ss_pred             HHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChH--HHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCC------HHH
Q 039362          280 KESLELFTEMQIVGITPDEITFLGLLSACAHGGLVM--EAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQ------VTE  351 (440)
Q Consensus       280 ~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~--~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~------~~~  351 (440)
                      ++++++++.+.+.. +-+...|..-...+.+.|.++  +++++++++++... -|...|+.....+...++      +++
T Consensus       127 ~~EL~~~~~~l~~~-pkny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d~-~N~sAW~~R~~ll~~l~~~~~~~~~~e  204 (306)
T 3dra_A          127 YREFDILEAMLSSD-PKNHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTDL-KNNSAWSHRFFLLFSKKHLATDNTIDE  204 (306)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHSSGGGCCHHHHHH
T ss_pred             HHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHhccccchhhhHHH
Confidence            88888888887764 445666666666666677776  78888888877653 256666666666666665      777


Q ss_pred             HHHHHhcC-CCCc-cHhHHHHHHHHHHhcCCh-hHHHHHHHHHHhcC---CCCCchHHHHHHHHHhccChHHHHHHHHHH
Q 039362          352 AYEFICQM-PLEP-TASMLGSLLTGCMNHGKL-DLAEIVGKKLVELQ---PDHDGRYVGLSNVYAIFKRWDEARTTREAM  425 (440)
Q Consensus       352 a~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~-~~a~~~~~~~~~~~---~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  425 (440)
                      +++.++++ ...| |...|+.+...+.+.|+. +.+..+.+++.+.+   |.++..+..++.+|.+.|+.++|.++++.+
T Consensus       205 El~~~~~aI~~~p~n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~~A~~~~~~l  284 (306)
T 3dra_A          205 ELNYVKDKIVKCPQNPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYNESRTVYDLL  284 (306)
T ss_dssp             HHHHHHHHHHHCSSCHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCCCccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHH
Confidence            77777776 3344 556677777777676664 33556777766665   666677778888888888888888888887


Q ss_pred             Hh
Q 039362          426 ET  427 (440)
Q Consensus       426 ~~  427 (440)
                      .+
T Consensus       285 ~~  286 (306)
T 3dra_A          285 KS  286 (306)
T ss_dssp             HH
T ss_pred             Hh
Confidence            65

>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=99.20  E-value=2.1e-10  Score=98.80  Aligned_cols=180  Identities=11%  Similarity=0.003  Sum_probs=110.3

Q ss_pred             HHHHhcCCHHHHHHHHhhhhhcCC-------chhhHHHHHHHHHhcCChHHHHHHHHHHHHcC---CCcc--HhhHHHHH
Q 039362          238 DMYAKCGAIKEALIVFHGVEKHQS-------DVLIWNAMIGGLAMHGFVKESLELFTEMQIVG---ITPD--EITFLGLL  305 (440)
Q Consensus       238 ~~~~~~g~~~~A~~~~~~~~~~~~-------~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~---~~p~--~~~~~~l~  305 (440)
                      ..|...|++++|...|.+.....+       -...|+.+...|...|++++|+..|++..+.-   -.|.  ..++..+.
T Consensus        44 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg  123 (307)
T 2ifu_A           44 VAFKNAKQLEQAKDAYLQEAEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAG  123 (307)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            445566666666666666543311       13356666677777777777777777654321   0121  24566666


Q ss_pred             HHHHcCCChHHHHHHHHHHhhcCCCC-----CcchHHHHHHHHHhcCCHHHHHHHHhcC-CCC------cc-HhHHHHHH
Q 039362          306 SACAHGGLVMEAWYFFKSLGKRGMVP-----KSEHYACMVDALSRAGQVTEAYEFICQM-PLE------PT-ASMLGSLL  372 (440)
Q Consensus       306 ~~~~~~~~~~~a~~~~~~~~~~~~~~-----~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~------p~-~~~~~~l~  372 (440)
                      ..|.. |++++|+..|++..+.....     ...++..+...|.+.|++++|++.+++. .+.      +. ...+..++
T Consensus       124 ~~~~~-g~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g  202 (307)
T 2ifu_A          124 KLMEP-LDLSKAVHLYQQAAAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQV  202 (307)
T ss_dssp             HHHTT-TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHc-CCHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHH
Confidence            77766 88888888887776541100     1345667777888888888888888776 211      11 12555666


Q ss_pred             HHHHhcCChhHHHHHHHHHHhcCCCCCch-----HHHHHHHHHhccChHHHHH
Q 039362          373 TGCMNHGKLDLAEIVGKKLVELQPDHDGR-----YVGLSNVYAIFKRWDEART  420 (440)
Q Consensus       373 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~-----~~~l~~~~~~~g~~~~A~~  420 (440)
                      .++...|++++|...|++++ ..|.....     ...++.++ ..|+.+.+.+
T Consensus       203 ~~~~~~g~~~~A~~~~~~al-~~p~~~~~~e~~~l~~l~~~~-~~~d~~~~~~  253 (307)
T 2ifu_A          203 LVQLHRADYVAAQKCVRESY-SIPGFSGSEDCAALEDLLQAY-DEQDEEQLLR  253 (307)
T ss_dssp             HHHHHTTCHHHHHHHHHHHT-TSTTSTTSHHHHHHHHHHHHH-HTTCHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHh-CCCCCCCCHHHHHHHHHHHHH-HhcCHHHHHH
Confidence            67777788888888888888 77765432     33344444 4566655544

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=99.19  E-value=4.5e-09  Score=96.19  Aligned_cols=372  Identities=9%  Similarity=-0.003  Sum_probs=186.7

Q ss_pred             C-ChhhHHHHhhhcCCCChHHHHHHHHHHHccCChhhHHHHHHHHHHcCCCCCcchHHHHHHHhhchhc-HHHHHHHHHH
Q 039362           11 G-NIDYSCKVLSHLSNPRIFYWNTVIRGYSKSKNPNKSISLFVKMLRAGVSPDHLTYPFLAKASGRLAK-RELAVAVHAQ   88 (440)
Q Consensus        11 g-~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~a~~~~~~   88 (440)
                      | +++.|+.+|+....           .+-. |+++.+..+|++....  .|+...|...+....+.++ .+....+|+.
T Consensus         8 ~~~i~~aR~vyer~l~-----------~~P~-~~~e~~~~iferal~~--~ps~~LW~~Y~~f~~~~~~~~~~i~~~fe~   73 (493)
T 2uy1_A            8 GVELSSPSAIMEHARR-----------LYMS-KDYRSLESLFGRCLKK--SYNLDLWMLYIEYVRKVSQKKFKLYEVYEF   73 (493)
T ss_dssp             ----CCHHHHHHHHHH-----------HHHT-TCHHHHHHHHHHHSTT--CCCHHHHHHHHHHHHHHC----CTHHHHHH
T ss_pred             CcchHHHHHHHHHHHH-----------HCCC-CCHHHHHHHHHHHhcc--CCCHHHHHHHHHHHHHhCchHHHHHHHHHH
Confidence            6 37777777776531           1111 8899999999998874  4788888888887766653 4567778887


Q ss_pred             HHHc-CC-CCcHHHHHHHHHHHH----hcCCHHHHHHHhhCCCCCchhhHHHHHHHHH---hcCChHHHHHHHhhCCCCc
Q 039362           89 IAKT-GY-ESDLFISNSLIHMYG----SCGDIVYAREVFDGMPTKMSVSWNSMLDGYA---KCGEMNMARQVFELMPERN  159 (440)
Q Consensus        89 ~~~~-~~-~~~~~~~~~l~~~~~----~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~---~~~~~~~a~~~~~~~~~~~  159 (440)
                      ++.. |. ..+..+|...+..+.    ..|+.+.+..+|+.........+..+-..|.   .......+.+++..     
T Consensus        74 al~~vg~d~~s~~iW~~Yi~f~~~~~~~~~~~~~vR~iy~rAL~~P~~~~~~lw~~Y~~fE~~~~~~~~~~~~~~-----  148 (493)
T 2uy1_A           74 TLGQFENYWDSYGLYKEYIEEEGKIEDEQTRIEKIRNGYMRALQTPMGSLSELWKDFENFELELNKITGKKIVGD-----  148 (493)
T ss_dssp             HHHHSTTCTTCHHHHHHHHHHTSSCSSHHHHHHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHHCHHHHHHHHHH-----
T ss_pred             HHHHcCCCcccHHHHHHHHHHHHhchhhhHHHHHHHHHHHHHHhChhhhHHHHHHHHHHHHHHhccccHHHHHHH-----
Confidence            7764 42 235677777776544    2456777888887765411111111111111   11111112221111     


Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhc--CC-----hHHHHHHHHHHHHcCCCCchhh
Q 039362          160 VVSWSALIDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHL--GA-----LDQGRMMLRYMIDKGLSLTLPL  232 (440)
Q Consensus       160 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--~~-----~~~a~~~~~~~~~~~~~~~~~~  232 (440)
                                .  .+.+..|..+++.+...-...+...+...+.--...  +-     .+.+..+|++++... +.+...
T Consensus       149 ----------~--~~~y~~ar~~y~~~~~~~~~~s~~~W~~y~~~E~~~~~~~~~~~~~~Rv~~~ye~al~~~-p~~~~l  215 (493)
T 2uy1_A          149 ----------T--LPIFQSSFQRYQQIQPLIRGWSVKNAARLIDLEMENGMKLGGRPHESRMHFIHNYILDSF-YYAEEV  215 (493)
T ss_dssp             ----------H--HHHHHHHHHHHHHHHHHHHTCSHHHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHHT-TTCHHH
T ss_pred             ----------H--hHHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHhcCCccCcchhhHHHHHHHHHHHHHcC-CCCHHH
Confidence                      0  012223333333322110001122232222221111  00     234556677666654 555666


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHhhhhhcCCchhhHHHHHHHHHhcCChHHHHHHHHHHHHcC---------C---CccHhh
Q 039362          233 QTSLIDMYAKCGAIKEALIVFHGVEKHQSDVLIWNAMIGGLAMHGFVKESLELFTEMQIVG---------I---TPDEIT  300 (440)
Q Consensus       233 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~---------~---~p~~~~  300 (440)
                      |...+..+.+.|+.++|..+|++.... |.......   .|....+.++.   ++.+.+.-         .   ......
T Consensus       216 W~~ya~~~~~~~~~~~ar~i~erAi~~-P~~~~l~~---~y~~~~e~~~~---~~~l~~~~~~~~~~~~~~~~~~~~~~l  288 (493)
T 2uy1_A          216 YFFYSEYLIGIGQKEKAKKVVERGIEM-SDGMFLSL---YYGLVMDEEAV---YGDLKRKYSMGEAESAEKVFSKELDLL  288 (493)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH-CCSSHHHH---HHHHHTTCTHH---HHHHHHHTC----------CHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhC-CCcHHHHH---HHHhhcchhHH---HHHHHHHHHhhccchhhhhcccccHHH
Confidence            666666677777777777777777666 54332211   12211111111   22221110         0   011133


Q ss_pred             HHHHHHHHHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhc-CCHHHHHHHHhcC--CCCccHhHHHHHHHHHHh
Q 039362          301 FLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRA-GQVTEAYEFICQM--PLEPTASMLGSLLTGCMN  377 (440)
Q Consensus       301 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~~~~~a~~~~~~~--~~~p~~~~~~~l~~~~~~  377 (440)
                      |...+....+.++.+.|..+|+++ ... ..+...|...+..-... ++.+.|..+|+..  ....++..+...+.....
T Consensus       289 w~~y~~~~~r~~~~~~AR~i~~~A-~~~-~~~~~v~i~~A~lE~~~~~d~~~ar~ife~al~~~~~~~~~~~~yid~e~~  366 (493)
T 2uy1_A          289 RINHLNYVLKKRGLELFRKLFIEL-GNE-GVGPHVFIYCAFIEYYATGSRATPYNIFSSGLLKHPDSTLLKEEFFLFLLR  366 (493)
T ss_dssp             HHHHHHHHHHHHCHHHHHHHHHHH-TTS-CCCHHHHHHHHHHHHHHHCCSHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHh-hCC-CCChHHHHHHHHHHHHHCCChHHHHHHHHHHHHHCCCCHHHHHHHHHHHHH
Confidence            455555555566677777777777 321 12223333222222222 3577777777765  221123445555665666


Q ss_pred             cCChhHHHHHHHHHHhcCCCCCchHHHHHHHHHhccChHHHHHHHHHHHh
Q 039362          378 HGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEARTTREAMET  427 (440)
Q Consensus       378 ~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  427 (440)
                      .|+.+.|..+|+++    +.....|...+..-...|+.+.+.+++++..+
T Consensus       367 ~~~~~~aR~l~er~----~k~~~lw~~~~~fE~~~G~~~~~r~v~~~~~~  412 (493)
T 2uy1_A          367 IGDEENARALFKRL----EKTSRMWDSMIEYEFMVGSMELFRELVDQKMD  412 (493)
T ss_dssp             HTCHHHHHHHHHHS----CCBHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHH----HHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            77777777777776    22344566666666667777777777776664

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=99.19  E-value=6.9e-10  Score=94.42  Aligned_cols=163  Identities=10%  Similarity=-0.052  Sum_probs=115.2

Q ss_pred             chhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCCcchH-HHHH
Q 039362          262 DVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHY-ACMV  340 (440)
Q Consensus       262 ~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-~~l~  340 (440)
                      +...+..+...+...|++++|...|++..+.. +.+...+..+...+...|++++|...++++....  |+.... ....
T Consensus       116 ~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~~--p~~~~~~~~~~  192 (287)
T 3qou_A          116 EEELXAQQAMQLMQESNYTDALPLLXDAWQLS-NQNGEIGLLLAETLIALNRSEDAEAVLXTIPLQD--QDTRYQGLVAQ  192 (287)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGGG--CSHHHHHHHHH
T ss_pred             chhhHHHHHHHHHhCCCHHHHHHHHHHHHHhC-CcchhHHHHHHHHHHHCCCHHHHHHHHHhCchhh--cchHHHHHHHH
Confidence            34455566666777777777777777776653 3345566677777777777777777777776643  332222 2222


Q ss_pred             HHHHhcCCHHHHHHHHhcC-CCCc-cHhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCC--CchHHHHHHHHHhccChH
Q 039362          341 DALSRAGQVTEAYEFICQM-PLEP-TASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDH--DGRYVGLSNVYAIFKRWD  416 (440)
Q Consensus       341 ~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~  416 (440)
                      ..+...++.++|.+.+++. ...| +...+..+...+...|++++|+..++++++.+|.+  ...+..++.++...|+.+
T Consensus       193 ~~l~~~~~~~~a~~~l~~al~~~P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~  272 (287)
T 3qou_A          193 IELLXQAADTPEIQQLQQQVAENPEDAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQTRXTFQEILAALGTGD  272 (287)
T ss_dssp             HHHHHHHTSCHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGHHHHHHHHHHHHHCTTC
T ss_pred             HHHHhhcccCccHHHHHHHHhcCCccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccchHHHHHHHHHHHcCCCC
Confidence            3355666777777777766 3344 45777888888889999999999999999998887  668888999999999999


Q ss_pred             HHHHHHHHHHh
Q 039362          417 EARTTREAMET  427 (440)
Q Consensus       417 ~A~~~~~~~~~  427 (440)
                      +|...+++.+.
T Consensus       273 ~a~~~~r~al~  283 (287)
T 3qou_A          273 ALASXYRRQLY  283 (287)
T ss_dssp             HHHHHHHHHHH
T ss_pred             cHHHHHHHHHH
Confidence            98888877654

>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=99.18  E-value=1.8e-10  Score=90.28  Aligned_cols=159  Identities=9%  Similarity=-0.004  Sum_probs=92.3

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHhhhhhcCC-chhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcC
Q 039362          233 QTSLIDMYAKCGAIKEALIVFHGVEKHQS-DVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHG  311 (440)
Q Consensus       233 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~  311 (440)
                      ...+...+...|++++|...|+++.+..| +...+..+...+...|++++|+..+++....  .|+......+...    
T Consensus         9 ~~~~a~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~--~p~~~~~~~~~~~----   82 (176)
T 2r5s_A            9 LLKQVSELLQQGEHAQALNVIQTLSDELQSRGDVKLAKADCLLETKQFELAQELLATIPLE--YQDNSYKSLIAKL----   82 (176)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHTSCHHHHTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGG--GCCHHHHHHHHHH----
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhc--cCChHHHHHHHHH----
Confidence            34445555566666666666666554444 3445555555556666666666665554433  2222111111000    


Q ss_pred             CChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcC-CCCc-cHhHHHHHHHHHHhcCChhHHHHHHH
Q 039362          312 GLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQM-PLEP-TASMLGSLLTGCMNHGKLDLAEIVGK  389 (440)
Q Consensus       312 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~  389 (440)
                                                    .+...+...+|...+++. ...| +...+..+...+...|++++|+..++
T Consensus        83 ------------------------------~~~~~~~~~~a~~~~~~al~~~P~~~~~~~~la~~~~~~g~~~~A~~~~~  132 (176)
T 2r5s_A           83 ------------------------------ELHQQAAESPELKRLEQELAANPDNFELACELAVQYNQVGRDEEALELLW  132 (176)
T ss_dssp             ------------------------------HHHHHHTSCHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             ------------------------------HHHhhcccchHHHHHHHHHHhCCCCHHHHHHHHHHHHHcccHHHHHHHHH
Confidence                                          001111122344445444 3344 35667777788888888888888888


Q ss_pred             HHHhcCCCC--CchHHHHHHHHHhccChHHHHHHHHHHHh
Q 039362          390 KLVELQPDH--DGRYVGLSNVYAIFKRWDEARTTREAMET  427 (440)
Q Consensus       390 ~~~~~~~~~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  427 (440)
                      ++++.+|..  +..+..++.++...|+.++|...+++.+.
T Consensus       133 ~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~A~~~y~~al~  172 (176)
T 2r5s_A          133 NILKVNLGAQDGEVKKTFMDILSALGQGNAIASKYRRQLY  172 (176)
T ss_dssp             HHHTTCTTTTTTHHHHHHHHHHHHHCSSCHHHHHHHHHHH
T ss_pred             HHHHhCcccChHHHHHHHHHHHHHhCCCCcHHHHHHHHHH
Confidence            888888765  44778888888888888888888877654

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=99.15  E-value=9.1e-08  Score=87.55  Aligned_cols=354  Identities=12%  Similarity=-0.011  Sum_probs=214.2

Q ss_pred             cCChhhHHHHhhhcC--CCChHHHHHHHHHHHccCC-hhhHHHHHHHHHHc-CCC-CCcchHHHHHHHhh----chhcHH
Q 039362           10 LGNIDYSCKVLSHLS--NPRIFYWNTVIRGYSKSKN-PNKSISLFVKMLRA-GVS-PDHLTYPFLAKASG----RLAKRE   80 (440)
Q Consensus        10 ~g~~~~A~~~~~~~~--~~~~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~~-~~~-~~~~~~~~l~~~~~----~~~~~~   80 (440)
                      .|+++.|..+|++..  -|++..|...+....+.++ .+....+|+..... |.. ++...|...+..+.    ..++.+
T Consensus        27 ~~~~e~~~~iferal~~~ps~~LW~~Y~~f~~~~~~~~~~i~~~fe~al~~vg~d~~s~~iW~~Yi~f~~~~~~~~~~~~  106 (493)
T 2uy1_A           27 SKDYRSLESLFGRCLKKSYNLDLWMLYIEYVRKVSQKKFKLYEVYEFTLGQFENYWDSYGLYKEYIEEEGKIEDEQTRIE  106 (493)
T ss_dssp             TTCHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHC----CTHHHHHHHHHHSTTCTTCHHHHHHHHHHTSSCSSHHHHHH
T ss_pred             CCCHHHHHHHHHHHhccCCCHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHcCCCcccHHHHHHHHHHHHhchhhhHHHH
Confidence            378999999999876  4899999999998877764 46778889987765 432 35567777777654    357899


Q ss_pred             HHHHHHHHHHHcCCCCcHHHHHHHHHHHHhcCCHHHHHHHhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHhhCCC---
Q 039362           81 LAVAVHAQIAKTGYESDLFISNSLIHMYGSCGDIVYAREVFDGMPTKMSVSWNSMLDGYAKCGEMNMARQVFELMPE---  157 (440)
Q Consensus        81 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---  157 (440)
                      .+.++|+.++...+..-...|...... ........+..++.+..                 +.+..|..+++.+..   
T Consensus       107 ~vR~iy~rAL~~P~~~~~~lw~~Y~~f-E~~~~~~~~~~~~~~~~-----------------~~y~~ar~~y~~~~~~~~  168 (493)
T 2uy1_A          107 KIRNGYMRALQTPMGSLSELWKDFENF-ELELNKITGKKIVGDTL-----------------PIFQSSFQRYQQIQPLIR  168 (493)
T ss_dssp             HHHHHHHHHHTSCCTTHHHHHHHHHHH-HHHHCHHHHHHHHHHHH-----------------HHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhChhhhHHHHHHHHHHH-HHHhccccHHHHHHHHh-----------------HHHHHHHHHHHHHHHHHh
Confidence            999999999984222112233322221 11222222332222110                 122223323222221   


Q ss_pred             -CchhhHHHHHHHHHhcC-------CHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCc
Q 039362          158 -RNVVSWSALIDGYVKCG-------DYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLT  229 (440)
Q Consensus       158 -~~~~~~~~l~~~~~~~~-------~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  229 (440)
                       .+...|...+.--...+       ..+.+..+|+++.... +.+...+...+..+.+.|+++.|..++++....  |.+
T Consensus       169 ~~s~~~W~~y~~~E~~~~~~~~~~~~~~Rv~~~ye~al~~~-p~~~~lW~~ya~~~~~~~~~~~ar~i~erAi~~--P~~  245 (493)
T 2uy1_A          169 GWSVKNAARLIDLEMENGMKLGGRPHESRMHFIHNYILDSF-YYAEEVYFFYSEYLIGIGQKEKAKKVVERGIEM--SDG  245 (493)
T ss_dssp             TCSHHHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHHT-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCS
T ss_pred             hccHHHHHHHHHHHhcCCccCcchhhHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC--CCc
Confidence             13335555444322211       1345677888877653 445666777777777888899999999988877  444


Q ss_pred             hhhHHHHHHHHHhcCCHHHH-HHHHhhhh--h--------cCCchhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccH
Q 039362          230 LPLQTSLIDMYAKCGAIKEA-LIVFHGVE--K--------HQSDVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDE  298 (440)
Q Consensus       230 ~~~~~~l~~~~~~~g~~~~A-~~~~~~~~--~--------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~  298 (440)
                      ...+..    |......++. ..+.+...  .        .......|...+....+.++.+.|..+|+++ ... ..+.
T Consensus       246 ~~l~~~----y~~~~e~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~lw~~y~~~~~r~~~~~~AR~i~~~A-~~~-~~~~  319 (493)
T 2uy1_A          246 MFLSLY----YGLVMDEEAVYGDLKRKYSMGEAESAEKVFSKELDLLRINHLNYVLKKRGLELFRKLFIEL-GNE-GVGP  319 (493)
T ss_dssp             SHHHHH----HHHHTTCTHHHHHHHHHTC----------CHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHH-TTS-CCCH
T ss_pred             HHHHHH----HHhhcchhHHHHHHHHHHHhhccchhhhhcccccHHHHHHHHHHHHHcCCHHHHHHHHHHh-hCC-CCCh
Confidence            433332    2221111111 11111110  0        0112345677777777788899999999998 321 2233


Q ss_pred             hhHHHHHHHHHc-CCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcCCCCccHhHHHHHHHHHHh
Q 039362          299 ITFLGLLSACAH-GGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQMPLEPTASMLGSLLTGCMN  377 (440)
Q Consensus       299 ~~~~~l~~~~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~p~~~~~~~l~~~~~~  377 (440)
                      ..|......-.. .++.+.|..+|+...+.. +-+...+...++...+.|+.+.|..+|+++.  .....|...+..-..
T Consensus       320 ~v~i~~A~lE~~~~~d~~~ar~ife~al~~~-~~~~~~~~~yid~e~~~~~~~~aR~l~er~~--k~~~lw~~~~~fE~~  396 (493)
T 2uy1_A          320 HVFIYCAFIEYYATGSRATPYNIFSSGLLKH-PDSTLLKEEFFLFLLRIGDEENARALFKRLE--KTSRMWDSMIEYEFM  396 (493)
T ss_dssp             HHHHHHHHHHHHHHCCSHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHSC--CBHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCChHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH--HHHHHHHHHHHHHHH
Confidence            334322221112 246999999999998863 1234455667777788999999999999983  356788888887788


Q ss_pred             cCChhHHHHHHHHHHh
Q 039362          378 HGKLDLAEIVGKKLVE  393 (440)
Q Consensus       378 ~g~~~~a~~~~~~~~~  393 (440)
                      .|+.+.+..+++++.+
T Consensus       397 ~G~~~~~r~v~~~~~~  412 (493)
T 2uy1_A          397 VGSMELFRELVDQKMD  412 (493)
T ss_dssp             HSCHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHH
Confidence            8999999999998875

>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=99.15  E-value=4e-10  Score=85.53  Aligned_cols=82  Identities=7%  Similarity=-0.061  Sum_probs=38.4

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCC-chhhHHHHHHHHHhcCC
Q 039362          200 SVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQS-DVLIWNAMIGGLAMHGF  278 (440)
Q Consensus       200 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~  278 (440)
                      .+...|...|++++|...|++.++.. |.+..++..+..+|...|++++|+..|+++.+..| +...+..+...|.+.|+
T Consensus        36 ~la~~y~~~~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~  114 (150)
T 4ga2_A           36 YFAKLYYEAKEYDLAKKYICTYINVQ-ERDPKAHRFLGLLYELEENTDKAVECYRRSVELNPTQKDLVLKIAELLCKNDV  114 (150)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCS
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCchHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCC
Confidence            34444444444444444444444443 33444444444445555555555555544444444 23444444445555555


Q ss_pred             hHHH
Q 039362          279 VKES  282 (440)
Q Consensus       279 ~~~a  282 (440)
                      +++|
T Consensus       115 ~~~a  118 (150)
T 4ga2_A          115 TDGR  118 (150)
T ss_dssp             SSSH
T ss_pred             hHHH
Confidence            4443

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=99.15  E-value=2.7e-09  Score=90.74  Aligned_cols=164  Identities=9%  Similarity=-0.030  Sum_probs=103.7

Q ss_pred             CCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCCchhhHHHHH-
Q 039362          192 KANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQSDVLIWNAMI-  270 (440)
Q Consensus       192 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~-  270 (440)
                      +.+...+..+...+...|++++|...++++.+.. |.+...+..+..++...|++++|...++++....|+........ 
T Consensus       114 p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~~p~~~~~~~~~~  192 (287)
T 3qou_A          114 PREEELXAQQAMQLMQESNYTDALPLLXDAWQLS-NQNGEIGLLLAETLIALNRSEDAEAVLXTIPLQDQDTRYQGLVAQ  192 (287)
T ss_dssp             CCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGGGCSHHHHHHHHH
T ss_pred             CCchhhHHHHHHHHHhCCCHHHHHHHHHHHHHhC-CcchhHHHHHHHHHHHCCCHHHHHHHHHhCchhhcchHHHHHHHH
Confidence            3344455566666777777777777777777665 55666777777777777777777777777766666543322222 


Q ss_pred             HHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHhhcCCCC-CcchHHHHHHHHHhcCCH
Q 039362          271 GGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVP-KSEHYACMVDALSRAGQV  349 (440)
Q Consensus       271 ~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~  349 (440)
                      ..+...++.++|+..+++..... +.+...+..+...+...|++++|...|.++.+..... +...+..++..+...|+.
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            23455566666777777766653 4445566667777777777777777777777653211 134555666666666666


Q ss_pred             HHHHHHHh
Q 039362          350 TEAYEFIC  357 (440)
Q Consensus       350 ~~a~~~~~  357 (440)
                      ++|...++
T Consensus       272 ~~a~~~~r  279 (287)
T 3qou_A          272 DALASXYR  279 (287)
T ss_dssp             CHHHHHHH
T ss_pred             CcHHHHHH
Confidence            66655554

>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=99.13  E-value=6.6e-10  Score=104.55  Aligned_cols=162  Identities=14%  Similarity=0.042  Sum_probs=124.0

Q ss_pred             cCCHHHHHHHHhhhhhcCC-chhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHH
Q 039362          243 CGAIKEALIVFHGVEKHQS-DVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFF  321 (440)
Q Consensus       243 ~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~  321 (440)
                      .|++++|...|+++.+..| +...+..+...+...|++++|.+.+++..+.. +.+...+..+...+...|++++|...+
T Consensus         2 ~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~   80 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRHRPQDFVAWLMLADAELGMGDTTAGEMAVQRGLALH-PGHPEAVARLGRVRWTQQRHAEAAVLL   80 (568)
T ss_dssp             -------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTS-TTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             CccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            4789999999999887766 47788999999999999999999999998764 445678889999999999999999999


Q ss_pred             HHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcC-CCCc-cHhHHHHHHHHHHhc---CChhHHHHHHHHHHhcCC
Q 039362          322 KSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQM-PLEP-TASMLGSLLTGCMNH---GKLDLAEIVGKKLVELQP  396 (440)
Q Consensus       322 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~---g~~~~a~~~~~~~~~~~~  396 (440)
                      ++..+.. +.+...+..+...|.+.|++++|.+.+++. ...| +...+..+...+...   |++++|...++++++.+|
T Consensus        81 ~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~~~p  159 (568)
T 2vsy_A           81 QQASDAA-PEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLLPEEPYITAQLLNWRRRLCDWRALDVLSAQVRAAVAQGV  159 (568)
T ss_dssp             HHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHHHTC
T ss_pred             HHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhhccccHHHHHHHHHHHHhcCC
Confidence            9999864 235678889999999999999999999998 4445 457788899999999   999999999999999999


Q ss_pred             CCCchHHHHH
Q 039362          397 DHDGRYVGLS  406 (440)
Q Consensus       397 ~~~~~~~~l~  406 (440)
                      .+...+..++
T Consensus       160 ~~~~~~~~l~  169 (568)
T 2vsy_A          160 GAVEPFAFLS  169 (568)
T ss_dssp             CCSCHHHHTT
T ss_pred             cccChHHHhC
Confidence            9888777666

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=99.13  E-value=1.2e-08  Score=83.47  Aligned_cols=21  Identities=10%  Similarity=0.091  Sum_probs=14.6

Q ss_pred             hcCCHHHHHHHHhhhhhcCCc
Q 039362          242 KCGAIKEALIVFHGVEKHQSD  262 (440)
Q Consensus       242 ~~g~~~~A~~~~~~~~~~~~~  262 (440)
                      ..|++++|...|+++.+..|+
T Consensus       108 ~~~~~~~A~~~~~~~l~~~P~  128 (225)
T 2yhc_A          108 DPQQARAAFSDFSKLVRGYPN  128 (225)
T ss_dssp             CCHHHHHHHHHHHHHHTTCTT
T ss_pred             CcHHHHHHHHHHHHHHHHCcC
Confidence            356777777777777766664

>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=99.13  E-value=3.1e-09  Score=83.21  Aligned_cols=154  Identities=12%  Similarity=0.039  Sum_probs=86.5

Q ss_pred             HHHHHHHhcCChHHHHHHHhhCCC---CchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHH-HHhcC
Q 039362          134 SMLDGYAKCGEMNMARQVFELMPE---RNVVSWSALIDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCA-CAHLG  209 (440)
Q Consensus       134 ~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~  209 (440)
                      .+...+.+.|++++|...|++..+   .+...+..+...+...|++++|+..+++.....  |+.......... +...+
T Consensus        11 ~~a~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~~--p~~~~~~~~~~~~~~~~~   88 (176)
T 2r5s_A           11 KQVSELLQQGEHAQALNVIQTLSDELQSRGDVKLAKADCLLETKQFELAQELLATIPLEY--QDNSYKSLIAKLELHQQA   88 (176)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHTSCHHHHTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGGG--CCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhcc--CChHHHHHHHHHHHHhhc
Confidence            334444555555555555555543   234556666666666666666666666654432  232222211111 11212


Q ss_pred             ChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCCc---hhhHHHHHHHHHhcCChHHHHHHH
Q 039362          210 ALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQSD---VLIWNAMIGGLAMHGFVKESLELF  286 (440)
Q Consensus       210 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~  286 (440)
                      ....+...+++..+.. |.+...+..+..++...|++++|...|+++.+..|+   ...+..+...+...|+.++|...|
T Consensus        89 ~~~~a~~~~~~al~~~-P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~A~~~y  167 (176)
T 2r5s_A           89 AESPELKRLEQELAAN-PDNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQGNAIASKY  167 (176)
T ss_dssp             TSCHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSCHHHHHH
T ss_pred             ccchHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCCcHHHHH
Confidence            2234566666666654 455666666777777777777777777776665553   335666667777777777777766


Q ss_pred             HHHH
Q 039362          287 TEMQ  290 (440)
Q Consensus       287 ~~m~  290 (440)
                      ++..
T Consensus       168 ~~al  171 (176)
T 2r5s_A          168 RRQL  171 (176)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            6544

>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=99.12  E-value=1.2e-09  Score=102.76  Aligned_cols=149  Identities=9%  Similarity=-0.103  Sum_probs=111.8

Q ss_pred             cCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCC-chhhHHHHHHHHHhcCChHHHHHHH
Q 039362          208 LGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQS-DVLIWNAMIGGLAMHGFVKESLELF  286 (440)
Q Consensus       208 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~  286 (440)
                      .|++++|...+++..+.. +.+...+..+...|...|++++|...|++..+..| +...+..+...+...|++++|.+.+
T Consensus         2 ~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~   80 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRHR-PQDFVAWLMLADAELGMGDTTAGEMAVQRGLALHPGHPEAVARLGRVRWTQQRHAEAAVLL   80 (568)
T ss_dssp             --------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTSTTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             CccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            478899999999988775 66778889999999999999999999999987766 4678888999999999999999999


Q ss_pred             HHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhc---CCHHHHHHHHhcC
Q 039362          287 TEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRA---GQVTEAYEFICQM  359 (440)
Q Consensus       287 ~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---~~~~~a~~~~~~~  359 (440)
                      ++..+.. +.+...+..+..++...|++++|...+++..+.. +.+...+..+...+...   |++++|.+.+++.
T Consensus        81 ~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~a  154 (568)
T 2vsy_A           81 QQASDAA-PEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLL-PEEPYITAQLLNWRRRLCDWRALDVLSAQVRAA  154 (568)
T ss_dssp             HHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHH
T ss_pred             HHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhhccccHHHHHHHHHHH
Confidence            9988864 4456788888999999999999999999998864 22566788888899999   9999999999887

>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=99.09  E-value=3.9e-10  Score=97.08  Aligned_cols=195  Identities=8%  Similarity=-0.049  Sum_probs=146.4

Q ss_pred             cCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCCchhhHHHHHHHHHhcCChHHHHHHHH
Q 039362          208 LGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQSDVLIWNAMIGGLAMHGFVKESLELFT  287 (440)
Q Consensus       208 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  287 (440)
                      .|++++|.+++++..+.. +..         .+...++++.|...|..+             ...|...|++++|...|.
T Consensus         4 ~~~~~eA~~~~~~a~k~~-~~~---------~~~~~~~~~~A~~~~~~a-------------~~~~~~~g~~~~A~~~~~   60 (307)
T 2ifu_A            4 AQKISEAHEHIAKAEKYL-KTS---------FMKWKPDYDSAASEYAKA-------------AVAFKNAKQLEQAKDAYL   60 (307)
T ss_dssp             HHHHHHHHHHHHHHHHHH-CCC---------SSSCSCCHHHHHHHHHHH-------------HHHHHHTTCHHHHHHHHH
T ss_pred             cchHHHHHHHHHHHHHHc-ccc---------ccCCCCCHHHHHHHHHHH-------------HHHHHHcCCHHHHHHHHH
Confidence            466778888887776542 111         011147888888887765             457788899999999998


Q ss_pred             HHHHc----CCCcc-HhhHHHHHHHHHcCCChHHHHHHHHHHhhcC--C-CC--CcchHHHHHHHHHhcCCHHHHHHHHh
Q 039362          288 EMQIV----GITPD-EITFLGLLSACAHGGLVMEAWYFFKSLGKRG--M-VP--KSEHYACMVDALSRAGQVTEAYEFIC  357 (440)
Q Consensus       288 ~m~~~----~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~-~~--~~~~~~~l~~~~~~~~~~~~a~~~~~  357 (440)
                      +..+.    +-.+. ..+|..+...|...|++++|+..|++..+.-  . .+  ...++..+...|.. |++++|++.++
T Consensus        61 ~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~~~A~~~~~  139 (307)
T 2ifu_A           61 QEAEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDLSKAVHLYQ  139 (307)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCHHHHHHHHH
Confidence            87653    21111 3478888889999999999999999887651  1 11  13567788888988 99999999998


Q ss_pred             cC-CCCc-------cHhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCCc------hHHHHHHHHHhccChHHHHHHHH
Q 039362          358 QM-PLEP-------TASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDG------RYVGLSNVYAIFKRWDEARTTRE  423 (440)
Q Consensus       358 ~~-~~~p-------~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~------~~~~l~~~~~~~g~~~~A~~~~~  423 (440)
                      +. .+.|       ...++..+...+...|++++|+..++++++..|.+..      .+..++.++...|++++|...++
T Consensus       140 ~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~~~~~~g~~~~A~~~~~  219 (307)
T 2ifu_A          140 QAAAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQVLVQLHRADYVAAQKCVR  219 (307)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            87 2221       1467888999999999999999999999998655432      56677788888899999999999


Q ss_pred             HHH
Q 039362          424 AME  426 (440)
Q Consensus       424 ~~~  426 (440)
                      +.+
T Consensus       220 ~al  222 (307)
T 2ifu_A          220 ESY  222 (307)
T ss_dssp             HHT
T ss_pred             HHh
Confidence            987

>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=99.08  E-value=7.1e-10  Score=93.98  Aligned_cols=95  Identities=11%  Similarity=-0.106  Sum_probs=46.8

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCC-chhhHHHHHHHHH
Q 039362          196 VTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQS-DVLIWNAMIGGLA  274 (440)
Q Consensus       196 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~  274 (440)
                      ..+..+...+...|++++|...+++..+.. +.+...+..+..+|...|++++|+..++++.+..| +...+..+..++.
T Consensus         5 ~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~   83 (281)
T 2c2l_A            5 QELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLGQCQL   83 (281)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHH
Confidence            344444445555555555555555555443 33444455555555555555555555555544433 2334444444555


Q ss_pred             hcCChHHHHHHHHHHHH
Q 039362          275 MHGFVKESLELFTEMQI  291 (440)
Q Consensus       275 ~~~~~~~a~~~~~~m~~  291 (440)
                      ..|++++|...|++..+
T Consensus        84 ~~g~~~~A~~~~~~al~  100 (281)
T 2c2l_A           84 EMESYDEAIANLQRAYS  100 (281)
T ss_dssp             HTTCHHHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHH
Confidence            55555555555544443

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=99.06  E-value=6.6e-10  Score=83.92  Aligned_cols=97  Identities=10%  Similarity=-0.017  Sum_probs=73.4

Q ss_pred             cchHHHHHHHHHhcCCHHHHHHHHhcC-CCCc-cHhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCCchHHHHHHHHH
Q 039362          333 SEHYACMVDALSRAGQVTEAYEFICQM-PLEP-TASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYA  410 (440)
Q Consensus       333 ~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~  410 (440)
                      ...+..+...+.+.|++++|...|++. ...| +...|..+..++...|++++|+..|+++++.+|.++..+..++.+|.
T Consensus        36 ~~~~~~lg~~~~~~g~~~eA~~~~~~al~~~P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~P~~~~~~~~lg~~~~  115 (151)
T 3gyz_A           36 MDDIYSYAYDFYNKGRIEEAEVFFRFLCIYDFYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALGKNDYTPVFHTGQCQL  115 (151)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSSSCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCCCCcHHHHHHHHHHH
Confidence            345566667777777777777777776 4444 45677777788888888888888888888888888888888888888


Q ss_pred             hccChHHHHHHHHHHHhcC
Q 039362          411 IFKRWDEARTTREAMETRG  429 (440)
Q Consensus       411 ~~g~~~~A~~~~~~~~~~~  429 (440)
                      ..|++++|...|++.++..
T Consensus       116 ~lg~~~eA~~~~~~al~l~  134 (151)
T 3gyz_A          116 RLKAPLKAKECFELVIQHS  134 (151)
T ss_dssp             HTTCHHHHHHHHHHHHHHC
T ss_pred             HcCCHHHHHHHHHHHHHhC
Confidence            8888888888888877654

>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=99.06  E-value=1.6e-08  Score=81.66  Aligned_cols=172  Identities=13%  Similarity=0.072  Sum_probs=115.2

Q ss_pred             HHHHHhhCCC-CchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcC----ChHHHHHHHHHHH
Q 039362          148 ARQVFELMPE-RNVVSWSALIDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLG----ALDQGRMMLRYMI  222 (440)
Q Consensus       148 a~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~----~~~~a~~~~~~~~  222 (440)
                      |.+.|++..+ .++..+..+...|...+++++|+..|++..+.|   +...+..+...|.. +    ++++|...|++..
T Consensus         5 A~~~~~~aa~~g~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~-~g~~~~~~~A~~~~~~A~   80 (212)
T 3rjv_A            5 PGSQYQQQAEAGDRRAQYYLADTWVSSGDYQKAEYWAQKAAAQG---DGDALALLAQLKIR-NPQQADYPQARQLAEKAV   80 (212)
T ss_dssp             TTHHHHHHHHTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT---CHHHHHHHHHHTTS-STTSCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc-CCCCCCHHHHHHHHHHHH
Confidence            3444444333 456677777777777788888888888877654   44555566666665 5    7788888888776


Q ss_pred             HcCCCCchhhHHHHHHHHHh----cCCHHHHHHHHhhhhhcCCc---hhhHHHHHHHHHh----cCChHHHHHHHHHHHH
Q 039362          223 DKGLSLTLPLQTSLIDMYAK----CGAIKEALIVFHGVEKHQSD---VLIWNAMIGGLAM----HGFVKESLELFTEMQI  291 (440)
Q Consensus       223 ~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~~~---~~~~~~l~~~~~~----~~~~~~a~~~~~~m~~  291 (440)
                      +.+   ++..+..|...|..    .+++++|+.+|++..+..+.   +..+..|...|..    .+++++|+..|++..+
T Consensus        81 ~~g---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~  157 (212)
T 3rjv_A           81 EAG---SKSGEIVLARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFKGSSS  157 (212)
T ss_dssp             HTT---CHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHH
T ss_pred             HCC---CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHH
Confidence            654   45566667777766    67788888888877765553   6677777777777    6778888888887776


Q ss_pred             cCCCccHhhHHHHHHHHHcC-C-----ChHHHHHHHHHHhhcC
Q 039362          292 VGITPDEITFLGLLSACAHG-G-----LVMEAWYFFKSLGKRG  328 (440)
Q Consensus       292 ~~~~p~~~~~~~l~~~~~~~-~-----~~~~a~~~~~~~~~~~  328 (440)
                      .  ..+...+..|...|... |     +.++|...|++..+.|
T Consensus       158 ~--~~~~~a~~~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~~g  198 (212)
T 3rjv_A          158 L--SRTGYAEYWAGMMFQQGEKGFIEPNKQKALHWLNVSCLEG  198 (212)
T ss_dssp             T--SCTTHHHHHHHHHHHHCBTTTBCCCHHHHHHHHHHHHHHT
T ss_pred             c--CCCHHHHHHHHHHHHcCCCCCCCCCHHHHHHHHHHHHHcC
Confidence            5  22333455555555432 2     6778888887777765

>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=99.05  E-value=1.8e-08  Score=81.58  Aligned_cols=90  Identities=12%  Similarity=-0.076  Sum_probs=51.7

Q ss_pred             HHHHHHHhcCChHHHHHHHhhCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHH
Q 039362          134 SMLDGYAKCGEMNMARQVFELMPERNVVSWSALIDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQ  213 (440)
Q Consensus       134 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  213 (440)
                      .+...+...|++++|...|++...++...+..+...+...|++++|+..+++..... +.+...+..+..++...|++++
T Consensus        11 ~~g~~~~~~~~~~~A~~~~~~a~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~lg~~~~~~~~~~~   89 (213)
T 1hh8_A           11 NEGVLAADKKDWKGALDAFSAVQDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYYQTEKYDL   89 (213)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHTSSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHcCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcccHHH
Confidence            344445555555555555555555555556666666666666666666666655543 3344455555555666666666


Q ss_pred             HHHHHHHHHHc
Q 039362          214 GRMMLRYMIDK  224 (440)
Q Consensus       214 a~~~~~~~~~~  224 (440)
                      |...++...+.
T Consensus        90 A~~~~~~al~~  100 (213)
T 1hh8_A           90 AIKDLKEALIQ  100 (213)
T ss_dssp             HHHHHHHHHHT
T ss_pred             HHHHHHHHHHh
Confidence            66666665553

>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=99.02  E-value=6.5e-09  Score=84.14  Aligned_cols=131  Identities=11%  Similarity=-0.082  Sum_probs=107.0

Q ss_pred             hhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHH
Q 039362          264 LIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDAL  343 (440)
Q Consensus       264 ~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  343 (440)
                      ..+..+...+...|++++|...|++..    .|+...+..+...+...|++++|+..+++..+.. +.+...+..+...|
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            345667778888999999999998763    6677888889999999999999999999988864 23566788888999


Q ss_pred             HhcCCHHHHHHHHhcC-CCCc-----------------cHhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCC
Q 039362          344 SRAGQVTEAYEFICQM-PLEP-----------------TASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHD  399 (440)
Q Consensus       344 ~~~~~~~~a~~~~~~~-~~~p-----------------~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~  399 (440)
                      ...|++++|.+.+++. ...|                 ....+..+..++...|++++|...++++.+..|.+.
T Consensus        82 ~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~  155 (213)
T 1hh8_A           82 YQTEKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKSEPR  155 (213)
T ss_dssp             HHTTCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCSGG
T ss_pred             HHcccHHHHHHHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHcCcccc
Confidence            9999999999999887 3222                 226778888889999999999999999999988863

>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=99.00  E-value=3.2e-08  Score=84.46  Aligned_cols=160  Identities=8%  Similarity=-0.073  Sum_probs=112.1

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHcC-CCccHh----hHHHHHHHHHcCCChHHHHHHHHHHhhcCCC-CCc----chHH
Q 039362          268 AMIGGLAMHGFVKESLELFTEMQIVG-ITPDEI----TFLGLLSACAHGGLVMEAWYFFKSLGKRGMV-PKS----EHYA  337 (440)
Q Consensus       268 ~l~~~~~~~~~~~~a~~~~~~m~~~~-~~p~~~----~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~----~~~~  337 (440)
                      ..+..+...|++++|..++++..+.. ..|+..    .+..+...+...+++++|+..++++.+.... ++.    .+++
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            34566677788888888887776532 122211    2233555566667888888888888774222 221    2577


Q ss_pred             HHHHHHHhcCCHHHHHHHHhcC--------CCCcc-HhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCC------CchH
Q 039362          338 CMVDALSRAGQVTEAYEFICQM--------PLEPT-ASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDH------DGRY  402 (440)
Q Consensus       338 ~l~~~~~~~~~~~~a~~~~~~~--------~~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~------~~~~  402 (440)
                      .+...|...|++++|...++++        ...+. ..++..++..|.+.|++++|+..++++++..+..      ..++
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            7888888888888888887776        11122 2477888999999999999999999998865332      3468


Q ss_pred             HHHHHHHHhccC-hHHHHHHHHHHHh
Q 039362          403 VGLSNVYAIFKR-WDEARTTREAMET  427 (440)
Q Consensus       403 ~~l~~~~~~~g~-~~~A~~~~~~~~~  427 (440)
                      ..++.+|.+.|+ +++|.+.+++...
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            889999999995 6999999988865

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.97  E-value=5.9e-08  Score=82.82  Aligned_cols=163  Identities=6%  Similarity=-0.100  Sum_probs=102.4

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcc-H----hhHHHHHHHHHcCCChHHHHHHHHHHhhcCCC-CC----cc
Q 039362          265 IWNAMIGGLAMHGFVKESLELFTEMQIVGITPD-E----ITFLGLLSACAHGGLVMEAWYFFKSLGKRGMV-PK----SE  334 (440)
Q Consensus       265 ~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~-~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~  334 (440)
                      .+...+..+...|++++|.+.+.+..+...... .    ..+..+...+...|++++|+..+++..+.... .+    ..
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            344455566677777777777766655421111 1    12333444556667777777777777653111 11    23


Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHhcC-------CCCc--cHhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCC--C----C
Q 039362          335 HYACMVDALSRAGQVTEAYEFICQM-------PLEP--TASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPD--H----D  399 (440)
Q Consensus       335 ~~~~l~~~~~~~~~~~~a~~~~~~~-------~~~p--~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~--~----~  399 (440)
                      +++.+...|...|++++|...++++       +..+  ...++..++..|...|++++|+..++++++..+.  +    .
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            5667777777788888777777765       1111  1246777888888888888888888888765421  1    2


Q ss_pred             chHHHHHHHHHhccChHHH-HHHHHHHHh
Q 039362          400 GRYVGLSNVYAIFKRWDEA-RTTREAMET  427 (440)
Q Consensus       400 ~~~~~l~~~~~~~g~~~~A-~~~~~~~~~  427 (440)
                      .++..++.+|...|++++| ...+++...
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            3567788888888888888 666766543

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.96  E-value=1.4e-08  Score=83.87  Aligned_cols=122  Identities=11%  Similarity=-0.103  Sum_probs=59.2

Q ss_pred             HHHHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcCCCCcc----HhHHHHHHHHHHhcCCh
Q 039362          306 SACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQMPLEPT----ASMLGSLLTGCMNHGKL  381 (440)
Q Consensus       306 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~p~----~~~~~~l~~~~~~~g~~  381 (440)
                      ..+...|++++|.+.|+.+...+  |+......+...+.+.+++++|+..|+.....|+    ...+..+..++...|++
T Consensus       110 ~~L~~~g~y~eA~~~l~~~~~~~--p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~~d~~~~~~a~~~LG~al~~LG~~  187 (282)
T 4f3v_A          110 ACEAAQGNYADAMEALEAAPVAG--SEHLVAWMKAVVYGAAERWTDVIDQVKSAGKWPDKFLAGAAGVAHGVAAANLALF  187 (282)
T ss_dssp             HHHHHHTCHHHHHHHHTSSCCTT--CHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGCSCHHHHHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHCCCHHHHHHHHHHHHhcC--CchHHHHHHHHHHHHcCCHHHHHHHHHHhhccCCcccHHHHHHHHHHHHHHCCCH
Confidence            34444555555555555554432  3222333344455555555555555554422221    12344455555555555


Q ss_pred             hHHHHHHHHHHhcC--CC-CCchHHHHHHHHHhccChHHHHHHHHHHHhcC
Q 039362          382 DLAEIVGKKLVELQ--PD-HDGRYVGLSNVYAIFKRWDEARTTREAMETRG  429 (440)
Q Consensus       382 ~~a~~~~~~~~~~~--~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  429 (440)
                      ++|+..|+++....  |. .+......+.++.+.|+.++|..+|+++....
T Consensus       188 ~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~~  238 (282)
T 4f3v_A          188 TEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTTH  238 (282)
T ss_dssp             HHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence            55555555554321  11 12244455555555555555555555555543

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.95  E-value=6.1e-09  Score=76.23  Aligned_cols=107  Identities=11%  Similarity=0.020  Sum_probs=64.7

Q ss_pred             hHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcC-CCCc-cHhHHHHHHHHHHh
Q 039362          300 TFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQM-PLEP-TASMLGSLLTGCMN  377 (440)
Q Consensus       300 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~  377 (440)
                      .+......+.+.|++++|+..|++.++.. +.+...|..+..+|.+.|++++|++.+++. .+.| +...|..+..++..
T Consensus        15 ~~~~~G~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~   93 (126)
T 4gco_A           15 EEKNKGNEYFKKGDYPTAMRHYNEAVKRD-PENAILYSNRAACLTKLMEFQRALDDCDTCIRLDSKFIKGYIRKAACLVA   93 (126)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHH
Confidence            45556666666666666666666666643 124455666666666666666666666665 3333 34556666666666


Q ss_pred             cCChhHHHHHHHHHHhcCCCCCchHHHHHH
Q 039362          378 HGKLDLAEIVGKKLVELQPDHDGRYVGLSN  407 (440)
Q Consensus       378 ~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~  407 (440)
                      .|++++|+..|+++++++|.++.++..+..
T Consensus        94 ~~~~~~A~~~~~~al~l~P~~~~a~~~l~~  123 (126)
T 4gco_A           94 MREWSKAQRAYEDALQVDPSNEEAREGVRN  123 (126)
T ss_dssp             TTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHCcCCHHHHHHHHH
Confidence            666666666666666666666655554443

>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=98.94  E-value=1.4e-08  Score=78.37  Aligned_cols=127  Identities=13%  Similarity=0.000  Sum_probs=88.2

Q ss_pred             hHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcC-CCCc-cHhHHHHHHHHHHh
Q 039362          300 TFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQM-PLEP-TASMLGSLLTGCMN  377 (440)
Q Consensus       300 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~  377 (440)
                      .+..+...+...|++++|...|++..+.. +.+...+..+...+...|++++|.+.+++. ...| +...+..+..++..
T Consensus        15 ~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~a~~~~~   93 (166)
T 1a17_A           15 ELKTQANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMA   93 (166)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHH
Confidence            34445555556666666666666665542 124455666666666777777777776665 2233 45677788888889


Q ss_pred             cCChhHHHHHHHHHHhcCCCCCchHHHHHH--HHHhccChHHHHHHHHHHHh
Q 039362          378 HGKLDLAEIVGKKLVELQPDHDGRYVGLSN--VYAIFKRWDEARTTREAMET  427 (440)
Q Consensus       378 ~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~--~~~~~g~~~~A~~~~~~~~~  427 (440)
                      .|++++|...++++.+..|.++..+..+..  .+...|++++|.+.+++...
T Consensus        94 ~~~~~~A~~~~~~a~~~~p~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~  145 (166)
T 1a17_A           94 LGKFRAALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAGDEHKRS  145 (166)
T ss_dssp             TTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHHcccchHH
Confidence            999999999999999999888877744444  47788999999998887654

>2vgx_A Chaperone SYCD; alternative dimer assembly, tetratricopeptide repeat, type III secretion; HET: MLY; 1.95A {Yersinia enterocolitica} SCOP: k.38.1.1 PDB: 2vgx_B* 2vgy_A*

Probab=98.94  E-value=1.9e-09  Score=81.50  Aligned_cols=101  Identities=15%  Similarity=0.008  Sum_probs=55.4

Q ss_pred             hhHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcC-CCCc-cHhHHHHHHHHHH
Q 039362          299 ITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQM-PLEP-TASMLGSLLTGCM  376 (440)
Q Consensus       299 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~  376 (440)
                      ..+..+...+...|++++|+..|+++.... +.+...|..+..+|...|++++|++.|++. .+.| +...+..+..++.
T Consensus        22 ~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~lg~~~~  100 (148)
T 2vgx_A           22 EQLYSLAFNQYQSGXYEDAHXVFQALCVLD-HYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMDIXEPRFPFHAAECLL  100 (148)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHHcC-cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCchHHHHHHHHHH
Confidence            344445555556666666666666655543 124444555555566666666666666555 3333 3345555555556


Q ss_pred             hcCChhHHHHHHHHHHhcCCCCCc
Q 039362          377 NHGKLDLAEIVGKKLVELQPDHDG  400 (440)
Q Consensus       377 ~~g~~~~a~~~~~~~~~~~~~~~~  400 (440)
                      ..|++++|+..|+++++..|.++.
T Consensus       101 ~~g~~~~A~~~~~~al~~~p~~~~  124 (148)
T 2vgx_A          101 QXGELAEAESGLFLAQELIANXPE  124 (148)
T ss_dssp             HTTCHHHHHHHHHHHHHHHTTCGG
T ss_pred             HcCCHHHHHHHHHHHHHHCcCCCc
Confidence            666666666666666665555543

>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=98.94  E-value=1.1e-06  Score=75.22  Aligned_cols=230  Identities=12%  Similarity=0.037  Sum_probs=133.4

Q ss_pred             HHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcC-ChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhc-C-CH
Q 039362          170 YVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLG-ALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKC-G-AI  246 (440)
Q Consensus       170 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-g-~~  246 (440)
                      ..+.+..++|++++++++..+ +-+...++.--.++...| .+++++..++.++..+ +.+..+|+.-..++... + ++
T Consensus        64 ~~~~e~se~AL~lt~~~L~~n-P~~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~n-PKny~aW~hR~wlL~~l~~~~~  141 (349)
T 3q7a_A           64 AAKEEKSERALELTEIIVRMN-PAHYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQN-LKSYQVWHHRLLLLDRISPQDP  141 (349)
T ss_dssp             HHTTCCSHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTT-CCCHHHHHHHHHHHHHHCCSCC
T ss_pred             HHhCCCCHHHHHHHHHHHHhC-chhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHhcCCCh
Confidence            334455567777777777663 334444555555555566 4777777777777665 56666666666666555 5 67


Q ss_pred             HHHHHHHhhhhhcCC-chhhHHHHHHHHHhcCChH--------HHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCC----
Q 039362          247 KEALIVFHGVEKHQS-DVLIWNAMIGGLAMHGFVK--------ESLELFTEMQIVGITPDEITFLGLLSACAHGGL----  313 (440)
Q Consensus       247 ~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~--------~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~----  313 (440)
                      ++++.++.++.+..| |...|+...-.+.+.|.++        ++++.++++.+.. +-|...|+.....+.+.+.    
T Consensus       142 ~~EL~~~~k~L~~dpkNy~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~d-p~N~SAW~~R~~lL~~l~~~~~~  220 (349)
T 3q7a_A          142 VSEIEYIHGSLLPDPKNYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVD-GRNNSAWGWRWYLRVSRPGAETS  220 (349)
T ss_dssp             HHHHHHHHHHTSSCTTCHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHTTSTTCCCC
T ss_pred             HHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhccccccc
Confidence            777777777776654 5556655544444444444        7777777777764 4455666666666666654    


Q ss_pred             ---hHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCH--------------------HHHHHHHhcC-CC-------C
Q 039362          314 ---VMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQV--------------------TEAYEFICQM-PL-------E  362 (440)
Q Consensus       314 ---~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~--------------------~~a~~~~~~~-~~-------~  362 (440)
                         ++++++.+++++... +-|...|+.+-..+.+.|+.                    .+..++..++ +.       .
T Consensus       221 ~~~~~eELe~~~~aI~~~-P~n~SaW~Ylr~Ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  299 (349)
T 3q7a_A          221 SRSLQDELIYILKSIHLI-PHNVSAWNYLRGFLKHFSLPLVPILPAILPYTASKLNPDIETVEAFGFPMPSDPLPEDTPL  299 (349)
T ss_dssp             HHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCSGGGHHHHGGGTC--------------CCCCC-CCCSSCCS
T ss_pred             hHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCCCcccccccccccccccccccchhHHHHHHHHHhcccccccCC
Confidence               567777777777654 22555666665555555543                    2233333333 11       1


Q ss_pred             ccHhHHHHHHHHHHhcCChhHHHHHHHHHH-hcCCCCCchHH
Q 039362          363 PTASMLGSLLTGCMNHGKLDLAEIVGKKLV-ELQPDHDGRYV  403 (440)
Q Consensus       363 p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~-~~~~~~~~~~~  403 (440)
                      +....+..++..|...|+.++|.++++.+. +.+|.....|.
T Consensus       300 ~s~~al~~l~d~~~~~~~~~~a~~~~~~l~~~~dpir~~yw~  341 (349)
T 3q7a_A          300 PVPLALEYLADSFIEQNRVDDAAKVFEKLSSEYDQMRAGYWE  341 (349)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCGGGHHHHH
T ss_pred             CcHHHHHHHHHHHHhcCCHHHHHHHHHHHHhhhChHHHHHHH
Confidence            344455556666666666666666666664 34455444443

>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=98.93  E-value=4.2e-08  Score=83.06  Aligned_cols=100  Identities=9%  Similarity=-0.018  Sum_probs=65.3

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHH
Q 039362          160 VVSWSALIDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDM  239 (440)
Q Consensus       160 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  239 (440)
                      ...+..+...+...|++++|...|++..... +.+...+..+..++...|++++|...+++..+.. +.+...+..+..+
T Consensus         4 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~   81 (281)
T 2c2l_A            4 AQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLGQC   81 (281)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHH
Confidence            3455666666777777777777777766553 3355566666666777777777777777766654 4556666667777


Q ss_pred             HHhcCCHHHHHHHHhhhhhcCC
Q 039362          240 YAKCGAIKEALIVFHGVEKHQS  261 (440)
Q Consensus       240 ~~~~g~~~~A~~~~~~~~~~~~  261 (440)
                      |...|++++|...|++..+..|
T Consensus        82 ~~~~g~~~~A~~~~~~al~l~p  103 (281)
T 2c2l_A           82 QLEMESYDEAIANLQRAYSLAK  103 (281)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhCc
Confidence            7777777777777766654433

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.91  E-value=3.2e-08  Score=81.83  Aligned_cols=195  Identities=10%  Similarity=-0.046  Sum_probs=120.6

Q ss_pred             hcCChHHHHHHHHHHHHcCCCCchhhHHHH-------HHHHHhcCCHHHHHHHHhhhhhcCCch----------------
Q 039362          207 HLGALDQGRMMLRYMIDKGLSLTLPLQTSL-------IDMYAKCGAIKEALIVFHGVEKHQSDV----------------  263 (440)
Q Consensus       207 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l-------~~~~~~~g~~~~A~~~~~~~~~~~~~~----------------  263 (440)
                      ..++...|.+.|.++.+.. |.....|..+       ...+...++..+++..+.+..+..|+.                
T Consensus        18 ~~~d~~~A~~~F~~a~~~d-P~~~Daw~g~~a~g~~~~~~L~~~~r~~~a~~~~~~~l~l~p~~l~a~~~~~g~y~~~~~   96 (282)
T 4f3v_A           18 LPMSEARSLDLFTEITNYD-ESACDAWIGRIRCGDTDRVTLFRAWYSRRNFGQLSGSVQISMSTLNARIAIGGLYGDITY   96 (282)
T ss_dssp             TTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHTTCCCHHHHHHHHHTGGGTTHHHHTTTCCGGGGCCEEECCTTTCCCEE
T ss_pred             cCCCHHHHHHHHHHHHHhC-hhhhHHHHhHHHccCCcHHHHHHHHHHHHHHHHHHHHhcCChhhhhhhhccCCccccccc
Confidence            3566666666666666655 4445555555       344444444444444444444332211                


Q ss_pred             ------hhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCC--cch
Q 039362          264 ------LIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPK--SEH  335 (440)
Q Consensus       264 ------~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~  335 (440)
                            ...-.+...+...|++++|.++|..+...  .|+......+...+.+.+++++|+..|+...... .|.  ...
T Consensus        97 ~v~~r~dl~LayA~~L~~~g~y~eA~~~l~~~~~~--~p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~~-d~~~~~~a  173 (282)
T 4f3v_A           97 PVTSPLAITMGFAACEAAQGNYADAMEALEAAPVA--GSEHLVAWMKAVVYGAAERWTDVIDQVKSAGKWP-DKFLAGAA  173 (282)
T ss_dssp             ECSSHHHHHHHHHHHHHHHTCHHHHHHHHTSSCCT--TCHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGCS-CHHHHHHH
T ss_pred             ccCCHhHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCchHHHHHHHHHHHHcCCHHHHHHHHHHhhccC-CcccHHHH
Confidence                  12234556677778888888888776654  3443344455556777788888888887554421 111  235


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHhcC--CCC-c--cHhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCCchHHHHH
Q 039362          336 YACMVDALSRAGQVTEAYEFICQM--PLE-P--TASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLS  406 (440)
Q Consensus       336 ~~~l~~~~~~~~~~~~a~~~~~~~--~~~-p--~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~  406 (440)
                      +..+..++...|++++|+..|++.  +.. |  ..........++.+.|+.++|..+|+++...+|. +.....|.
T Consensus       174 ~~~LG~al~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~~P~-~~~~~aL~  248 (282)
T 4f3v_A          174 GVAHGVAAANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTTHPE-PKVAAALK  248 (282)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSCC-HHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCc-HHHHHHHh
Confidence            666777888888888888888877  211 4  2345667777788889999999999999888887 55555543

>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=98.90  E-value=3.7e-07  Score=77.81  Aligned_cols=126  Identities=14%  Similarity=0.133  Sum_probs=59.2

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHcCCC-Cc----hhhHHHHHHHHHhcCCHHHHHHHHhhhhhc-------CC-chhhHH
Q 039362          201 VLCACAHLGALDQGRMMLRYMIDKGLS-LT----LPLQTSLIDMYAKCGAIKEALIVFHGVEKH-------QS-DVLIWN  267 (440)
Q Consensus       201 l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-------~~-~~~~~~  267 (440)
                      +...+...+++++|...++++.+.... ++    ..+++.+..+|...|++++|...|+++.+.       .+ ...++.
T Consensus       121 l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  200 (293)
T 3u3w_A          121 VAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRY  200 (293)
T ss_dssp             HHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHH
T ss_pred             HHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHH
Confidence            333344444555555555555442211 11    113455555555555555555555554421       01 122455


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHc----CCCcc-HhhHHHHHHHHHcCCC-hHHHHHHHHHHhh
Q 039362          268 AMIGGLAMHGFVKESLELFTEMQIV----GITPD-EITFLGLLSACAHGGL-VMEAWYFFKSLGK  326 (440)
Q Consensus       268 ~l~~~~~~~~~~~~a~~~~~~m~~~----~~~p~-~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~  326 (440)
                      .+...|...|++++|...+++..+.    +..+. ..++..+..++.+.|+ +++|...++++..
T Consensus       201 nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~~A~~~~~~Al~  265 (293)
T 3u3w_A          201 NHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLYYQRGECLRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHHHH
Confidence            5555566666666666655554332    11111 3455555556666663 4666666655543

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.89  E-value=7.5e-08  Score=70.33  Aligned_cols=98  Identities=12%  Similarity=0.033  Sum_probs=56.3

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHH
Q 039362          162 SWSALIDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYA  241 (440)
Q Consensus       162 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  241 (440)
                      .+......|.+.|++++|++.|++.++.. +.+...+..+..++...|++++|+..+++.++.+ +.+...+..+..+|.
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            44555556666666666666666655543 3345555555556666666666666666655554 444555555555566


Q ss_pred             hcCCHHHHHHHHhhhhhcCC
Q 039362          242 KCGAIKEALIVFHGVEKHQS  261 (440)
Q Consensus       242 ~~g~~~~A~~~~~~~~~~~~  261 (440)
                      ..|++++|+..|+++.+..|
T Consensus        93 ~~~~~~~A~~~~~~al~l~P  112 (126)
T 4gco_A           93 AMREWSKAQRAYEDALQVDP  112 (126)
T ss_dssp             HTTCHHHHHHHHHHHHHHCT
T ss_pred             HCCCHHHHHHHHHHHHHHCc
Confidence            66666666666655555544

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.88  E-value=2.6e-08  Score=73.60  Aligned_cols=116  Identities=13%  Similarity=0.033  Sum_probs=76.7

Q ss_pred             HhhHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcC-CCCc-cHhHHHHHHHHH
Q 039362          298 EITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQM-PLEP-TASMLGSLLTGC  375 (440)
Q Consensus       298 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~  375 (440)
                      ...+..+...+...|++++|...|+++.+.. +.+...+..+...+...|++++|.+.+++. ...| +...+..+..++
T Consensus        16 ~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~   94 (133)
T 2lni_A           16 ALMVKNKGNECFQKGDYPQAMKHYTEAIKRN-PKDAKLYSNRAACYTKLLEFQLALKDCEECIQLEPTFIKGYTRKAAAL   94 (133)
T ss_dssp             HHHHHHHHHHHHHTTCSHHHHHHHHHHHTTC-TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCchHHHHHHHHHH
Confidence            3445555555666666666666666665532 123445555666666666666666666665 2223 456677777888


Q ss_pred             HhcCChhHHHHHHHHHHhcCCCCCchHHHHHHHHHhccC
Q 039362          376 MNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKR  414 (440)
Q Consensus       376 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  414 (440)
                      ...|++++|...++++.+..|.+...+..++.++...|+
T Consensus        95 ~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~  133 (133)
T 2lni_A           95 EAMKDYTKAMDVYQKALDLDSSCKEAADGYQRCMMAQYN  133 (133)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCGGGTHHHHHHHHHHHHHTC
T ss_pred             HHHhhHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHhcC
Confidence            888888888888888888888887788888887776653

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.87  E-value=1.9e-08  Score=73.95  Aligned_cols=117  Identities=15%  Similarity=0.026  Sum_probs=82.9

Q ss_pred             HhhHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcC-CCCc-cHhHHHHHHHHH
Q 039362          298 EITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQM-PLEP-TASMLGSLLTGC  375 (440)
Q Consensus       298 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~  375 (440)
                      ...+..+...+...|++++|...++++.... +.+...+..+...+...|++++|.+.+++. ...| +...+..+...+
T Consensus        12 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~   90 (131)
T 2vyi_A           12 AERLKTEGNEQMKVENFEAAVHFYGKAIELN-PANAVYFCNRAAAYSKLGNYAGAVQDCERAICIDPAYSKAYGRMGLAL   90 (131)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHccCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcCccCHHHHHHHHHHH
Confidence            3445555556666666666666666666542 124455666666667777777777777665 2233 356777888888


Q ss_pred             HhcCChhHHHHHHHHHHhcCCCCCchHHHHHHHHHhccCh
Q 039362          376 MNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKRW  415 (440)
Q Consensus       376 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  415 (440)
                      ...|++++|...++++.+..|.++..+..++.++...|++
T Consensus        91 ~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~  130 (131)
T 2vyi_A           91 SSLNKHVEAVAYYKKALELDPDNETYKSNLKIAELKLREA  130 (131)
T ss_dssp             HHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTTC
T ss_pred             HHhCCHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHhcC
Confidence            8999999999999999999998888888888888888765

>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=98.86  E-value=2e-08  Score=87.46  Aligned_cols=94  Identities=13%  Similarity=0.065  Sum_probs=78.9

Q ss_pred             chHHHHHHHHHhcCCHHHHHHHHhcC-CCCc-cHhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCCchHHHHHHHHHh
Q 039362          334 EHYACMVDALSRAGQVTEAYEFICQM-PLEP-TASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAI  411 (440)
Q Consensus       334 ~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~  411 (440)
                      ..|..+..+|.+.|++++|+..+++. .+.| +...+..+..++...|++++|+..|+++++.+|.+..++..++.++..
T Consensus       197 ~~~~nla~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~a~~~l~~~~~~  276 (336)
T 1p5q_A          197 ASHLNLAMCHLKLQAFSAAIESCNKALELDSNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYPNNKAAKTQLAVCQQR  276 (336)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHH
Confidence            56777888888888888888888887 4444 567788899999999999999999999999999999999999999999


Q ss_pred             ccChHHH-HHHHHHHHh
Q 039362          412 FKRWDEA-RTTREAMET  427 (440)
Q Consensus       412 ~g~~~~A-~~~~~~~~~  427 (440)
                      .|++++| ..++++|..
T Consensus       277 ~~~~~~a~~~~~~~~~~  293 (336)
T 1p5q_A          277 IRRQLAREKKLYANMFE  293 (336)
T ss_dssp             HHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHH
Confidence            9999988 456666643

>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=98.86  E-value=4.2e-07  Score=77.78  Aligned_cols=219  Identities=9%  Similarity=0.016  Sum_probs=160.7

Q ss_pred             hcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcC-CHHHHHHHHhhhhhcCC-chhhHHHHHHHHHhc-C-ChHHH
Q 039362          207 HLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCG-AIKEALIVFHGVEKHQS-DVLIWNAMIGGLAMH-G-FVKES  282 (440)
Q Consensus       207 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~-~-~~~~a  282 (440)
                      +.+..++|+++++.++..+ +.+..+++.-..++...| .+++++.+++.+....| +..+|+.-...+... + +++++
T Consensus        66 ~~e~se~AL~lt~~~L~~n-P~~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~nPKny~aW~hR~wlL~~l~~~~~~~E  144 (349)
T 3q7a_A           66 KEEKSERALELTEIIVRMN-PAHYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQNLKSYQVWHHRLLLLDRISPQDPVSE  144 (349)
T ss_dssp             TTCCSHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHCCSCCHHH
T ss_pred             hCCCCHHHHHHHHHHHHhC-chhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHhcCCChHHH
Confidence            3445678999999999887 777788888778888888 59999999999998776 567788777777766 6 89999


Q ss_pred             HHHHHHHHHcCCCccHhhHHHHHHHHHcCCChH--------HHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCC------
Q 039362          283 LELFTEMQIVGITPDEITFLGLLSACAHGGLVM--------EAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQ------  348 (440)
Q Consensus       283 ~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~--------~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~------  348 (440)
                      +++++.+.+.. +-|...|+.-...+.+.|.++        ++++.++++++..+ -|...|+.....+.+.++      
T Consensus       145 L~~~~k~L~~d-pkNy~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~dp-~N~SAW~~R~~lL~~l~~~~~~~~  222 (349)
T 3q7a_A          145 IEYIHGSLLPD-PKNYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVDG-RNNSAWGWRWYLRVSRPGAETSSR  222 (349)
T ss_dssp             HHHHHHHTSSC-TTCHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHTTSTTCCCCHH
T ss_pred             HHHHHHHHHhC-CCCHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHhccccccchH
Confidence            99999998764 446667766555555555555        89999999998753 377788888888888776      


Q ss_pred             -HHHHHHHHhcC-CCCc-cHhHHHHHHHHHHhcCCh--------------------hHHHHHHHHHHhcC------CCCC
Q 039362          349 -VTEAYEFICQM-PLEP-TASMLGSLLTGCMNHGKL--------------------DLAEIVGKKLVELQ------PDHD  399 (440)
Q Consensus       349 -~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~--------------------~~a~~~~~~~~~~~------~~~~  399 (440)
                       ++++++.++++ ...| |...|+.+-..+.+.|+.                    .........+....      +.++
T Consensus       223 ~~~eELe~~~~aI~~~P~n~SaW~Ylr~Ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~  302 (349)
T 3q7a_A          223 SLQDELIYILKSIHLIPHNVSAWNYLRGFLKHFSLPLVPILPAILPYTASKLNPDIETVEAFGFPMPSDPLPEDTPLPVP  302 (349)
T ss_dssp             HHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCSGGGHHHHGGGTC--------------CCCCC-CCCSSCCSCCH
T ss_pred             HHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCCCcccccccccccccccccccchhHHHHHHHHHhcccccccCCCcH
Confidence             68888888887 4555 556777766666666554                    22333333333222      3455


Q ss_pred             chHHHHHHHHHhccChHHHHHHHHHHHhc
Q 039362          400 GRYVGLSNVYAIFKRWDEARTTREAMETR  428 (440)
Q Consensus       400 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  428 (440)
                      .++..++..|...|+.++|.++++.+.+.
T Consensus       303 ~al~~l~d~~~~~~~~~~a~~~~~~l~~~  331 (349)
T 3q7a_A          303 LALEYLADSFIEQNRVDDAAKVFEKLSSE  331 (349)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhh
Confidence            57889999999999999999999998643

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.86  E-value=3.5e-08  Score=71.88  Aligned_cols=114  Identities=20%  Similarity=0.174  Sum_probs=74.6

Q ss_pred             hhHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcC-CCC-ccHhHHHHHHHHHH
Q 039362          299 ITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQM-PLE-PTASMLGSLLTGCM  376 (440)
Q Consensus       299 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~-p~~~~~~~l~~~~~  376 (440)
                      ..+..+...+...|++++|...++++.+.. +.+...+..+...+...|++++|...++++ ... .+..++..+...+.
T Consensus        10 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~   88 (125)
T 1na0_A           10 EAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYY   88 (125)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHH
Confidence            344555555556666666666666655542 123445555666666666666666666665 222 24566777788888


Q ss_pred             hcCChhHHHHHHHHHHhcCCCCCchHHHHHHHHHhcc
Q 039362          377 NHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFK  413 (440)
Q Consensus       377 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  413 (440)
                      ..|++++|...++++.+..|.++..+..++.++...|
T Consensus        89 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  125 (125)
T 1na0_A           89 KQGDYDEAIEYYQKALELDPNNAEAKQNLGNAKQKQG  125 (125)
T ss_dssp             HTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHC
T ss_pred             HhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhcc
Confidence            8888888888888888888888877777777766543

>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=98.86  E-value=1.5e-07  Score=72.45  Aligned_cols=127  Identities=10%  Similarity=0.016  Sum_probs=69.0

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHH
Q 039362          161 VSWSALIDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMY  240 (440)
Q Consensus       161 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  240 (440)
                      ..+..+...+...|++++|...|++..... +.+...+..+..++...|++++|...+++..+.. +.+...+..+..++
T Consensus        14 ~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~~   91 (166)
T 1a17_A           14 EELKTQANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASN   91 (166)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHH
Confidence            345555666666666666666666665543 3345555555566666666666666666665554 44455555555666


Q ss_pred             HhcCCHHHHHHHHhhhhhcCCc-hhhHH--HHHHHHHhcCChHHHHHHHHHH
Q 039362          241 AKCGAIKEALIVFHGVEKHQSD-VLIWN--AMIGGLAMHGFVKESLELFTEM  289 (440)
Q Consensus       241 ~~~g~~~~A~~~~~~~~~~~~~-~~~~~--~l~~~~~~~~~~~~a~~~~~~m  289 (440)
                      ...|++++|...|+++....|+ ...+.  ..+..+...|++++|+..+...
T Consensus        92 ~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~  143 (166)
T 1a17_A           92 MALGKFRAALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAGDEHK  143 (166)
T ss_dssp             HHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHHcccch
Confidence            6666666666666655544432 22222  2222244445555555555443

>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=98.85  E-value=1.3e-08  Score=79.76  Aligned_cols=127  Identities=13%  Similarity=0.087  Sum_probs=93.6

Q ss_pred             HHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHH-HHhcCCH--
Q 039362          273 LAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDA-LSRAGQV--  349 (440)
Q Consensus       273 ~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~--  349 (440)
                      +...|++++|+..+++..... +.+...+..+...+...|++++|...|+++.+.. +.+...+..+... +...|++  
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            346678888888888887764 4566778888888888899999999998888763 2245566777777 7788887  


Q ss_pred             HHHHHHHhcC-CCCc-cHhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCCch
Q 039362          350 TEAYEFICQM-PLEP-TASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGR  401 (440)
Q Consensus       350 ~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~  401 (440)
                      ++|...++++ ...| +...+..+...+...|++++|...++++++..|.++..
T Consensus        98 ~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~  151 (177)
T 2e2e_A           98 AQTRAMIDKALALDSNEITALMLLASDAFMQANYAQAIELWQKVMDLNSPRINR  151 (177)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCCTTSCH
T ss_pred             HHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcccHHHHHHHHHHHHhhCCCCccH
Confidence            8888888887 4444 45677778888888888888888888888888887643

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.84  E-value=8e-08  Score=72.44  Aligned_cols=102  Identities=14%  Similarity=0.008  Sum_probs=59.1

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHH
Q 039362          160 VVSWSALIDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDM  239 (440)
Q Consensus       160 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  239 (440)
                      ...+..+...+.+.|++++|...|++..... +.+...+..+..++...|++++|...|++..+.. |.++..+..+..+
T Consensus        36 ~~~~~~lg~~~~~~g~~~eA~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~-P~~~~~~~~lg~~  113 (151)
T 3gyz_A           36 MDDIYSYAYDFYNKGRIEEAEVFFRFLCIYD-FYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALG-KNDYTPVFHTGQC  113 (151)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-SSCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-CCCcHHHHHHHHH
Confidence            3445555556666666666666666665553 3345555555666666666666666666665554 4455555556666


Q ss_pred             HHhcCCHHHHHHHHhhhhhcCCch
Q 039362          240 YAKCGAIKEALIVFHGVEKHQSDV  263 (440)
Q Consensus       240 ~~~~g~~~~A~~~~~~~~~~~~~~  263 (440)
                      |...|++++|...|+++.+..|+.
T Consensus       114 ~~~lg~~~eA~~~~~~al~l~~~~  137 (151)
T 3gyz_A          114 QLRLKAPLKAKECFELVIQHSNDE  137 (151)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCCCH
T ss_pred             HHHcCCHHHHHHHHHHHHHhCCCH
Confidence            666666666666666655554443

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.82  E-value=2.8e-08  Score=70.82  Aligned_cols=100  Identities=13%  Similarity=0.081  Sum_probs=76.7

Q ss_pred             CcchHHHHHHHHHhcCCHHHHHHHHhcC-CCCc-cHhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCC--CCchHHHHHH
Q 039362          332 KSEHYACMVDALSRAGQVTEAYEFICQM-PLEP-TASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPD--HDGRYVGLSN  407 (440)
Q Consensus       332 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~--~~~~~~~l~~  407 (440)
                      +...+..+...+...|++++|...+++. ...| +...+..+...+...|++++|...++++++..|.  +...+..++.
T Consensus         5 ~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~l~~   84 (112)
T 2kck_A            5 NPEEYYLEGVLQYDAGNYTESIDLFEKAIQLDPEESKYWLMKGKALYNLERYEEAVDCYNYVINVIEDEYNKDVWAAKAD   84 (112)
T ss_dssp             STTGGGGHHHHHHSSCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSCCTTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCcccchHHHHHHHHH
Confidence            3445566667777777777777777766 2233 4566777888888888888888888888888888  7788888888


Q ss_pred             HHHhc-cChHHHHHHHHHHHhcCCc
Q 039362          408 VYAIF-KRWDEARTTREAMETRGVK  431 (440)
Q Consensus       408 ~~~~~-g~~~~A~~~~~~~~~~~~~  431 (440)
                      ++... |++++|.+.++++......
T Consensus        85 ~~~~~~~~~~~A~~~~~~~~~~~p~  109 (112)
T 2kck_A           85 ALRYIEGKEVEAEIAEARAKLEHHH  109 (112)
T ss_dssp             HHTTCSSCSHHHHHHHHHHGGGCCC
T ss_pred             HHHHHhCCHHHHHHHHHHHhhcccC
Confidence            88888 8889998888888776543

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.82  E-value=7.1e-07  Score=76.06  Aligned_cols=164  Identities=13%  Similarity=0.059  Sum_probs=95.3

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCH-----HHHHHHHHHHHhcCChHHHHHHHHHHHHcCCC---Cc--hh
Q 039362          162 SWSALIDGYVKCGDYKEALVIFEEMRDVGSKANE-----VTLVSVLCACAHLGALDQGRMMLRYMIDKGLS---LT--LP  231 (440)
Q Consensus       162 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~---~~--~~  231 (440)
                      .+...+..+...|++++|.+.+.+..+.....+.     ..+..+...+...|++++|...+++..+....   +.  ..
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            3445566777788888888887776654322111     12233444556667777777777776643211   11  33


Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHhhhhh---cCCc-----hhhHHHHHHHHHhcCChHHHHHHHHHHHHcC----CCc-cH
Q 039362          232 LQTSLIDMYAKCGAIKEALIVFHGVEK---HQSD-----VLIWNAMIGGLAMHGFVKESLELFTEMQIVG----ITP-DE  298 (440)
Q Consensus       232 ~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~-----~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~----~~p-~~  298 (440)
                      +++.+...|...|++++|...|+++.+   ..|+     ..++..+...|...|++++|...+++..+..    ... -.
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            566677777777777777777776652   2222     1456666667777777777777776654321    001 13


Q ss_pred             hhHHHHHHHHHcCCChHHH-HHHHHHHh
Q 039362          299 ITFLGLLSACAHGGLVMEA-WYFFKSLG  325 (440)
Q Consensus       299 ~~~~~l~~~~~~~~~~~~a-~~~~~~~~  325 (440)
                      .+|..+...+.+.|++++| ...+++..
T Consensus       237 ~~~~~lg~~y~~~g~~~~Ai~~~~~~Al  264 (293)
T 2qfc_A          237 QLYYQRGECLRKLEYEEAEIEDAYKKAS  264 (293)
T ss_dssp             HHHHHHHHHHHHTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCcHHHHHHHHHHHH
Confidence            4556666666666666666 55555544

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.82  E-value=2.6e-08  Score=74.69  Aligned_cols=101  Identities=13%  Similarity=-0.011  Sum_probs=54.7

Q ss_pred             hHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcC-CCCc-cHhHHHHHHHHHHh
Q 039362          300 TFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQM-PLEP-TASMLGSLLTGCMN  377 (440)
Q Consensus       300 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~  377 (440)
                      .+..+...+.+.|++++|...|+++.... +.+...|..+..+|...|++++|+..|++. .+.| ++..+..+..++..
T Consensus        20 ~~~~~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~   98 (142)
T 2xcb_A           20 QLYALGFNQYQAGKWDDAQKIFQALCMLD-HYDARYFLGLGACRQSLGLYEQALQSYSYGALMDINEPRFPFHAAECHLQ   98 (142)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHH
Confidence            34444555556666666666666665543 123444555555556666666666666555 2223 23445555555556


Q ss_pred             cCChhHHHHHHHHHHhcCCCCCch
Q 039362          378 HGKLDLAEIVGKKLVELQPDHDGR  401 (440)
Q Consensus       378 ~g~~~~a~~~~~~~~~~~~~~~~~  401 (440)
                      .|++++|+..|+++++..|.++..
T Consensus        99 ~g~~~~A~~~~~~al~~~p~~~~~  122 (142)
T 2xcb_A           99 LGDLDGAESGFYSARALAAAQPAH  122 (142)
T ss_dssp             TTCHHHHHHHHHHHHHHHHTCGGG
T ss_pred             cCCHHHHHHHHHHHHHhCCCCcch
Confidence            666666666666666555555433

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.81  E-value=9.3e-08  Score=76.52  Aligned_cols=148  Identities=11%  Similarity=0.043  Sum_probs=64.0

Q ss_pred             cCChHHHHH---HHhhCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhc----CCCC-CHHHHHHHHHHHHhcCChHH
Q 039362          142 CGEMNMARQ---VFELMPERNVVSWSALIDGYVKCGDYKEALVIFEEMRDV----GSKA-NEVTLVSVLCACAHLGALDQ  213 (440)
Q Consensus       142 ~~~~~~a~~---~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~  213 (440)
                      .|++++|.+   .+..-+.....++..+...+...|++++|...+++....    +..| ....+..+...+...|++++
T Consensus         5 ~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~   84 (203)
T 3gw4_A            5 AHDYALAERQAQALLAHPATASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGNWDA   84 (203)
T ss_dssp             --CHHHHHHHHHHHHTSTTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             cccHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCCHHH
Confidence            444555555   332222223444555555555566666665555554331    1111 12334444445555555555


Q ss_pred             HHHHHHHHHHc----CCC--CchhhHHHHHHHHHhcCCHHHHHHHHhhhhhc---CCc----hhhHHHHHHHHHhcCChH
Q 039362          214 GRMMLRYMIDK----GLS--LTLPLQTSLIDMYAKCGAIKEALIVFHGVEKH---QSD----VLIWNAMIGGLAMHGFVK  280 (440)
Q Consensus       214 a~~~~~~~~~~----~~~--~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~---~~~----~~~~~~l~~~~~~~~~~~  280 (440)
                      |...+++..+.    +..  .....+..+..++...|++++|...+++....   ..+    ..++..+...+...|+++
T Consensus        85 A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~  164 (203)
T 3gw4_A           85 ARRCFLEERELLASLPEDPLAASANAYEVATVALHFGDLAGARQEYEKSLVYAQQADDQVAIACAFRGLGDLAQQEKNLL  164 (203)
T ss_dssp             HHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHCcCHH
Confidence            55555554332    100  11223444445555555555555555544321   111    112334444444455555


Q ss_pred             HHHHHHHHH
Q 039362          281 ESLELFTEM  289 (440)
Q Consensus       281 ~a~~~~~~m  289 (440)
                      +|...+++.
T Consensus       165 ~A~~~~~~a  173 (203)
T 3gw4_A          165 EAQQHWLRA  173 (203)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            555444443

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.80  E-value=2.7e-07  Score=66.98  Aligned_cols=99  Identities=19%  Similarity=0.255  Sum_probs=50.3

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHH
Q 039362          161 VSWSALIDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMY  240 (440)
Q Consensus       161 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  240 (440)
                      ..+..+...+...|++++|.+.++++.... +.+...+..+..++...|++++|...++++.+.. +.+...+..+..++
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            344455555555555555555555554442 2234444455555555555555555555555443 33444444555555


Q ss_pred             HhcCCHHHHHHHHhhhhhcCC
Q 039362          241 AKCGAIKEALIVFHGVEKHQS  261 (440)
Q Consensus       241 ~~~g~~~~A~~~~~~~~~~~~  261 (440)
                      ...|++++|...|+++....|
T Consensus        88 ~~~~~~~~A~~~~~~~~~~~~  108 (125)
T 1na0_A           88 YKQGDYDEAIEYYQKALELDP  108 (125)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCT
T ss_pred             HHhcCHHHHHHHHHHHHHhCC
Confidence            555555555555555444333

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.79  E-value=2.3e-08  Score=72.56  Aligned_cols=97  Identities=16%  Similarity=-0.028  Sum_probs=83.1

Q ss_pred             chHHHHHHHHHhcCCHHHHHHHHhcC-CCCc-cHhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCCchHHHHHHHHHh
Q 039362          334 EHYACMVDALSRAGQVTEAYEFICQM-PLEP-TASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAI  411 (440)
Q Consensus       334 ~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~  411 (440)
                      ..+..+...+.+.|++++|...+++. ...| +...|..+..++...|++++|+..++++++.+|.++..+..++.+|..
T Consensus        18 ~~~~~~g~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~~~~~la~~~~~   97 (121)
T 1hxi_A           18 ENPMEEGLSMLKLANLAEAALAFEAVCQKEPEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHTN   97 (121)
T ss_dssp             SCHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHH
Confidence            34556777888999999999999988 4455 567888899999999999999999999999999999999999999999


Q ss_pred             ccChHHHHHHHHHHHhcCC
Q 039362          412 FKRWDEARTTREAMETRGV  430 (440)
Q Consensus       412 ~g~~~~A~~~~~~~~~~~~  430 (440)
                      .|++++|...+++.++...
T Consensus        98 ~g~~~~A~~~~~~al~~~P  116 (121)
T 1hxi_A           98 EHNANAALASLRAWLLSQP  116 (121)
T ss_dssp             HHHHHHHHHHHHHHHC---
T ss_pred             cCCHHHHHHHHHHHHHhCc
Confidence            9999999999999887543

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.78  E-value=2.7e-07  Score=67.69  Aligned_cols=117  Identities=9%  Similarity=-0.023  Sum_probs=63.2

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHH
Q 039362          160 VVSWSALIDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDM  239 (440)
Q Consensus       160 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  239 (440)
                      ...+..+...+...|++++|...+++..... +.+...+..+..++...|++++|...++...+.. +.+...+..+..+
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            3445555556666666666666666655542 2344455555555566666666666666655543 3344555555555


Q ss_pred             HHhcCCHHHHHHHHhhhhhcCC-chhhHHHHHHHHHhcCC
Q 039362          240 YAKCGAIKEALIVFHGVEKHQS-DVLIWNAMIGGLAMHGF  278 (440)
Q Consensus       240 ~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~  278 (440)
                      +...|++++|...|++..+..| +...+..+...+...|+
T Consensus        90 ~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~  129 (131)
T 2vyi_A           90 LSSLNKHVEAVAYYKKALELDPDNETYKSNLKIAELKLRE  129 (131)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTT
T ss_pred             HHHhCCHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHhc
Confidence            5555555555555555554444 33344444444444443

>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=98.78  E-value=7.3e-08  Score=72.72  Aligned_cols=94  Identities=12%  Similarity=-0.006  Sum_probs=41.3

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHhhhhhcCC-chhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHc
Q 039362          232 LQTSLIDMYAKCGAIKEALIVFHGVEKHQS-DVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAH  310 (440)
Q Consensus       232 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~  310 (440)
                      .+..+...+...|++++|+..|+++....| +...|..+..++...|++++|+..|++..... +.+...+..+..++..
T Consensus        23 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg~~~~~  101 (148)
T 2vgx_A           23 QLYSLAFNQYQSGXYEDAHXVFQALCVLDHYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMD-IXEPRFPFHAAECLLQ  101 (148)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHHcCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCchHHHHHHHHHHH
Confidence            333344444444444444444444443333 33344444444444444444444444444332 2223344444444444


Q ss_pred             CCChHHHHHHHHHHhh
Q 039362          311 GGLVMEAWYFFKSLGK  326 (440)
Q Consensus       311 ~~~~~~a~~~~~~~~~  326 (440)
                      .|++++|...|++..+
T Consensus       102 ~g~~~~A~~~~~~al~  117 (148)
T 2vgx_A          102 XGELAEAESGLFLAQE  117 (148)
T ss_dssp             TTCHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHH
Confidence            4444444444444444

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.78  E-value=2.6e-07  Score=68.04  Aligned_cols=100  Identities=11%  Similarity=0.015  Sum_probs=53.8

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHH
Q 039362          160 VVSWSALIDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDM  239 (440)
Q Consensus       160 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  239 (440)
                      ...+..+...+...|++++|...|++..... +.+...+..+..++...|++++|...+++..+.. +.+...+..+..+
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            3445555555556666666666666555442 2244455555555555556666665555555543 3344555555555


Q ss_pred             HHhcCCHHHHHHHHhhhhhcCC
Q 039362          240 YAKCGAIKEALIVFHGVEKHQS  261 (440)
Q Consensus       240 ~~~~g~~~~A~~~~~~~~~~~~  261 (440)
                      +...|++++|...|++..+..|
T Consensus        94 ~~~~~~~~~A~~~~~~~~~~~p  115 (133)
T 2lni_A           94 LEAMKDYTKAMDVYQKALDLDS  115 (133)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCG
T ss_pred             HHHHhhHHHHHHHHHHHHHhCC
Confidence            5555555555555555554443

>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=98.78  E-value=3.6e-08  Score=72.17  Aligned_cols=92  Identities=15%  Similarity=0.077  Sum_probs=47.6

Q ss_pred             HHHHHHHHhcCCHHHHHHHHhcC-CCCc-cHhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCCchHHHHHHHHHhccC
Q 039362          337 ACMVDALSRAGQVTEAYEFICQM-PLEP-TASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKR  414 (440)
Q Consensus       337 ~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  414 (440)
                      ..+...+.+.|++++|+..|++. ...| +...|..+..++...|++++|+..++++++.+|.++..+..++.++...|+
T Consensus         8 ~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~   87 (126)
T 3upv_A            8 RLEGKEYFTKSDWPNAVKAYTEMIKRAPEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDPNFVRAYIRKATAQIAVKE   87 (126)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHhcCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHhC
Confidence            33444444455555555554444 2222 234455555555555555555555555555555555555555555555555


Q ss_pred             hHHHHHHHHHHHhc
Q 039362          415 WDEARTTREAMETR  428 (440)
Q Consensus       415 ~~~A~~~~~~~~~~  428 (440)
                      +++|.+.+++..+.
T Consensus        88 ~~~A~~~~~~al~~  101 (126)
T 3upv_A           88 YASALETLDAARTK  101 (126)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHh
Confidence            55555555555443

>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=98.77  E-value=3.1e-06  Score=72.11  Aligned_cols=193  Identities=8%  Similarity=-0.063  Sum_probs=100.7

Q ss_pred             hHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcC--CHHHHHHHHhhhhhcCC-chhhHHHHHHHHHhcCC-hHHHHHHH
Q 039362          211 LDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCG--AIKEALIVFHGVEKHQS-DVLIWNAMIGGLAMHGF-VKESLELF  286 (440)
Q Consensus       211 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g--~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~-~~~a~~~~  286 (440)
                      ++++..+++.+...+ |.+..+|+.-..++...|  .+++++.++.++.+..| |...|+.-.-.+...|. ++++++.+
T Consensus        90 l~~EL~~~~~~L~~~-PKny~aW~hR~wlL~~l~~~~~~~EL~~~~k~l~~dprNy~AW~~R~~vl~~l~~~~~eel~~~  168 (331)
T 3dss_A           90 VKAELGFLESCLRVN-PKSYGTWHHRCWLLSRLPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEELAFT  168 (331)
T ss_dssp             HHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHCSSCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhC-CCCHHHHHHHHHHHhccCcccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhCcCHHHHHHHH
Confidence            455666666666554 555566655555555555  36666666666665544 45556555555555565 46666666


Q ss_pred             HHHHHcCCCccHhhHHHHHHHHHcC--------------CChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhc------
Q 039362          287 TEMQIVGITPDEITFLGLLSACAHG--------------GLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRA------  346 (440)
Q Consensus       287 ~~m~~~~~~p~~~~~~~l~~~~~~~--------------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~------  346 (440)
                      ..+.+.. +-|...|+.....+.+.              +.++++++.+...+... +-|...|+.+-..+.+.      
T Consensus       169 ~~~I~~~-p~N~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~~~eEle~~~~ai~~~-P~d~SaW~Y~r~ll~~~~~~~~~  246 (331)
T 3dss_A          169 DSLITRN-FSNYSSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFTD-PNDQSAWFYHRWLLGAGSGRCEL  246 (331)
T ss_dssp             HHHHHHC-SCCHHHHHHHHHHHHHHSCCC------CCCHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHSSSCGGGC
T ss_pred             HHHHHHC-CCCHHHHHHHHHHHHHhhhccccccccccchHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhccCcccc
Confidence            6666654 33444454444333322              33556666666666543 12444454443333333      


Q ss_pred             -----CCHHHHHHHHhcC-CCCccHhHHHHHHH-----HHHhcCChhHHHHHHHHHHhcCCCCCchHHHHHH
Q 039362          347 -----GQVTEAYEFICQM-PLEPTASMLGSLLT-----GCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSN  407 (440)
Q Consensus       347 -----~~~~~a~~~~~~~-~~~p~~~~~~~l~~-----~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~  407 (440)
                           +.++++++.++++ ...|+. .|..+..     .....|..++....+.++++++|....-|..+..
T Consensus       247 ~~~~~~~l~~el~~~~elle~~pd~-~w~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~~Dp~r~~~y~d~~~  317 (331)
T 3dss_A          247 SVEKSTVLQSELESCKELQELEPEN-KWCLLTIILLMRALDPLLYEKETLQYFSTLKAVDPMRAAYLDDLRS  317 (331)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHCTTC-HHHHHHHHHHHHHHCTTTTHHHHHHHHHHHHHHCGGGHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHHHHHhhCccc-chHHHHHHHHHHhhcccccHHHHHHHHHHHHHhCcchhhHHHHHHH
Confidence                 2345555555555 344443 2221111     1123455566666677777776666555554443

>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=98.77  E-value=1.2e-07  Score=74.11  Aligned_cols=116  Identities=8%  Similarity=0.030  Sum_probs=48.7

Q ss_pred             CChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCC-chhhHHHHHHH-HHhcCCh--HHHHH
Q 039362          209 GALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQS-DVLIWNAMIGG-LAMHGFV--KESLE  284 (440)
Q Consensus       209 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~-~~~~~~~--~~a~~  284 (440)
                      |++++|...++...+.. +.+...+..+..+|...|++++|...|+++....| +...+..+... +...|++  ++|..
T Consensus        24 ~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~l~~~~~~~~~~~A~~  102 (177)
T 2e2e_A           24 QNPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLRGENAELYAALATVLYYQASQHMTAQTRA  102 (177)
T ss_dssp             ---CCCCHHHHHHHHHC-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHCSCHHHHHHHHHHHHHHTTTCCCHHHHH
T ss_pred             cCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhcCCcchHHHHH
Confidence            34444444444444333 33334444444444444444444444444443322 23333334444 3344444  44444


Q ss_pred             HHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHhh
Q 039362          285 LFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGK  326 (440)
Q Consensus       285 ~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  326 (440)
                      .++++.+.. +.+...+..+...+...|++++|...|+++.+
T Consensus       103 ~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  143 (177)
T 2e2e_A          103 MIDKALALD-SNEITALMLLASDAFMQANYAQAIELWQKVMD  143 (177)
T ss_dssp             HHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHhC-CCcHHHHHHHHHHHHHcccHHHHHHHHHHHHh
Confidence            444444432 22233344444444444555555554444444

>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=98.76  E-value=6.4e-09  Score=83.14  Aligned_cols=173  Identities=10%  Similarity=0.010  Sum_probs=97.4

Q ss_pred             HHHHHhcCCHHHHHHHHhhhhhcCC-chhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChH
Q 039362          237 IDMYAKCGAIKEALIVFHGVEKHQS-DVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVM  315 (440)
Q Consensus       237 ~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~  315 (440)
                      +......|+++++.+.+.......+ ....+..+...+...|++++|+..|++.....  |+...+...        ...
T Consensus        11 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~--~~~~~~~~~--------~~~   80 (198)
T 2fbn_A           11 SSGRENLYFQGAKKSIYDYTDEEKVQSAFDIKEEGNEFFKKNEINEAIVKYKEALDFF--IHTEEWDDQ--------ILL   80 (198)
T ss_dssp             -----------CCCSGGGCCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT--TTCTTCCCH--------HHH
T ss_pred             hhhhhhhhhccccCchhhCCHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHH--hcccccchh--------hHH
Confidence            3344445555555555554332222 23445555566666666666666666665432  111000000        000


Q ss_pred             HHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcC-CCCc-cHhHHHHHHHHHHhcCChhHHHHHHHHHHh
Q 039362          316 EAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQM-PLEP-TASMLGSLLTGCMNHGKLDLAEIVGKKLVE  393 (440)
Q Consensus       316 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  393 (440)
                      .-.   ..       .....+..+..+|...|++++|+..+++. ...| +...+..+..++...|++++|+..|+++++
T Consensus        81 ~~~---~~-------~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~  150 (198)
T 2fbn_A           81 DKK---KN-------IEISCNLNLATCYNKNKDYPKAIDHASKVLKIDKNNVKALYKLGVANMYFGFLEEAKENLYKAAS  150 (198)
T ss_dssp             HHH---HH-------HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHH---HH-------HHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcccHHHHHHHHHHHHH
Confidence            000   00       01245667777888888888888888877 3344 557788889999999999999999999999


Q ss_pred             cCCCCCchHHHHHHHHHhccChHHHH-HHHHHHHhcC
Q 039362          394 LQPDHDGRYVGLSNVYAIFKRWDEAR-TTREAMETRG  429 (440)
Q Consensus       394 ~~~~~~~~~~~l~~~~~~~g~~~~A~-~~~~~~~~~~  429 (440)
                      ..|.++.++..+..++...|+.+++. ..+..+...+
T Consensus       151 ~~p~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~f~~~  187 (198)
T 2fbn_A          151 LNPNNLDIRNSYELCVNKLKEARKKDKLTFGGMFDKG  187 (198)
T ss_dssp             HSTTCHHHHHHHHHHHHHHHHHHC-------------
T ss_pred             HCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence            99999999999999999998888887 5566665543

>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=98.75  E-value=2.9e-08  Score=72.69  Aligned_cols=91  Identities=11%  Similarity=0.030  Sum_probs=44.9

Q ss_pred             HHHHHHHHhcCCHHHHHHHHhcC-CCCc-cHhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCCc-------hHHHHHH
Q 039362          337 ACMVDALSRAGQVTEAYEFICQM-PLEP-TASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDG-------RYVGLSN  407 (440)
Q Consensus       337 ~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~-------~~~~l~~  407 (440)
                      ..+...+.+.|++++|++.|++. .+.| +...|..+..++...|++++|+..++++++++|.+..       +|..++.
T Consensus        12 ~~lG~~~~~~~~~~~A~~~y~~Al~~~p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~   91 (127)
T 4gcn_A           12 KDLGNAAYKQKDFEKAHVHYDKAIELDPSNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAMSRAGN   91 (127)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHHHHHHH
Confidence            33444444555555555555444 2233 2344455555555555555555555555555444332       3344445


Q ss_pred             HHHhccChHHHHHHHHHHHh
Q 039362          408 VYAIFKRWDEARTTREAMET  427 (440)
Q Consensus       408 ~~~~~g~~~~A~~~~~~~~~  427 (440)
                      ++...|++++|.+.|++.+.
T Consensus        92 ~~~~~~~~~~A~~~~~kal~  111 (127)
T 4gcn_A           92 AFQKQNDLSLAVQWFHRSLS  111 (127)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHh
Confidence            55555555555555555544

>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=98.74  E-value=5.5e-06  Score=70.61  Aligned_cols=214  Identities=12%  Similarity=-0.006  Sum_probs=150.5

Q ss_pred             HHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCC----------HHHHHHHHhhhhhcCC-chhhHHHHHHHHHhcC--Ch
Q 039362          213 QGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGA----------IKEALIVFHGVEKHQS-DVLIWNAMIGGLAMHG--FV  279 (440)
Q Consensus       213 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~----------~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~--~~  279 (440)
                      +|+..++.++..+ |.+..+|+.--.++...+.          +++++.+++.+....| +..+|+.-.-.+...+  .+
T Consensus        48 eaL~~t~~~L~~n-P~~ytaWn~Rr~iL~~l~~~~~~~~~~~~l~~EL~~~~~~L~~~PKny~aW~hR~wlL~~l~~~~~  126 (331)
T 3dss_A           48 SVLELTSQILGAN-PDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPKSYGTWHHRCWLLSRLPEPNW  126 (331)
T ss_dssp             HHHHHHHHHHTTC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHCSSCCH
T ss_pred             HHHHHHHHHHHHC-chhHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHhccCcccH
Confidence            5666666666554 4444444433333222222          6788889988887766 6778888877777777  48


Q ss_pred             HHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCC-hHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhc------------
Q 039362          280 KESLELFTEMQIVGITPDEITFLGLLSACAHGGL-VMEAWYFFKSLGKRGMVPKSEHYACMVDALSRA------------  346 (440)
Q Consensus       280 ~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~------------  346 (440)
                      ++++..+..+.+.. +-|...|+.-...+...|. ++++++.+..+++..+ -|...|+.....+.+.            
T Consensus       127 ~~EL~~~~k~l~~d-prNy~AW~~R~~vl~~l~~~~~eel~~~~~~I~~~p-~N~SAW~~R~~ll~~l~~~~~~~~~~~~  204 (331)
T 3dss_A          127 ARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNF-SNYSSWHYRSCLLPQLHPQPDSGPQGRL  204 (331)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCS-CCHHHHHHHHHHHHHHSCCC------CC
T ss_pred             HHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHhhhcccccccccc
Confidence            99999999999876 5567777777777777787 5899999999998753 3667777776666655            


Q ss_pred             --CCHHHHHHHHhcC-CCCc-cHhHHHHHHHHHHhc-----------CChhHHHHHHHHHHhcCCCCCchHHHHHHH---
Q 039362          347 --GQVTEAYEFICQM-PLEP-TASMLGSLLTGCMNH-----------GKLDLAEIVGKKLVELQPDHDGRYVGLSNV---  408 (440)
Q Consensus       347 --~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~-----------g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~---  408 (440)
                        +.++++++.+.+. ...| |...|+.+-..+.+.           +.++++++.++++.+..|++.-.+..++..   
T Consensus       205 ~~~~~~eEle~~~~ai~~~P~d~SaW~Y~r~ll~~~~~~~~~~~~~~~~l~~el~~~~elle~~pd~~w~l~~~~~~~~~  284 (331)
T 3dss_A          205 PENVLLKELELVQNAFFTDPNDQSAWFYHRWLLGAGSGRCELSVEKSTVLQSELESCKELQELEPENKWCLLTIILLMRA  284 (331)
T ss_dssp             CHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHSSSCGGGCCHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhccCccccchHHHHHHHHHHHHHHHHHhhCcccchHHHHHHHHHHh
Confidence              4578888888887 4455 556676555554443           457899999999999999985444433332   


Q ss_pred             HHhccChHHHHHHHHHHHhcC
Q 039362          409 YAIFKRWDEARTTREAMETRG  429 (440)
Q Consensus       409 ~~~~g~~~~A~~~~~~~~~~~  429 (440)
                      ....|..+++...++++.+..
T Consensus       285 ~~~~~~~~~~~~~l~~l~~~D  305 (331)
T 3dss_A          285 LDPLLYEKETLQYFSTLKAVD  305 (331)
T ss_dssp             HCTTTTHHHHHHHHHHHHHHC
T ss_pred             hcccccHHHHHHHHHHHHHhC
Confidence            224678889999999998754

>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=98.73  E-value=3.3e-07  Score=79.67  Aligned_cols=146  Identities=12%  Similarity=0.029  Sum_probs=94.4

Q ss_pred             ChHHHHHHHhhCCC--C-chhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCC--------------HHHHHHHHHHHH
Q 039362          144 EMNMARQVFELMPE--R-NVVSWSALIDGYVKCGDYKEALVIFEEMRDVGSKAN--------------EVTLVSVLCACA  206 (440)
Q Consensus       144 ~~~~a~~~~~~~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--------------~~~~~~l~~~~~  206 (440)
                      ++++|...++...+  | +...+..+...+.+.|++++|+..|++.........              ...+..+..++.
T Consensus       128 ~~~~A~~~~~~a~~~~p~~a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~  207 (336)
T 1p5q_A          128 SFEKAKESWEMNSEEKLEQSTIVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHL  207 (336)
T ss_dssp             EEECCCCGGGCCHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             ecccccchhcCCHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhccccCChHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444444444332  2 455777888888888999999999988877632211              356666667777


Q ss_pred             hcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCC-chhhHHHHHHHHHhcCChHHH-HH
Q 039362          207 HLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQS-DVLIWNAMIGGLAMHGFVKES-LE  284 (440)
Q Consensus       207 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a-~~  284 (440)
                      +.|++++|...++++++.. +.+...+..+..+|...|++++|+..|+++.+..| +...+..+...+...|+.++| ..
T Consensus       208 ~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~a~~~l~~~~~~~~~~~~a~~~  286 (336)
T 1p5q_A          208 KLQAFSAAIESCNKALELD-SNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYPNNKAAKTQLAVCQQRIRRQLAREKK  286 (336)
T ss_dssp             HTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence            7777777777777776665 55666666777777777777777777777666655 345566666666666666666 33


Q ss_pred             HHHHHH
Q 039362          285 LFTEMQ  290 (440)
Q Consensus       285 ~~~~m~  290 (440)
                      .++.|.
T Consensus       287 ~~~~~~  292 (336)
T 1p5q_A          287 LYANMF  292 (336)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            444443

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.72  E-value=5.3e-07  Score=72.06  Aligned_cols=159  Identities=14%  Similarity=0.027  Sum_probs=96.8

Q ss_pred             chhcHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhcCCHHHHHHHhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHhh
Q 039362           75 RLAKRELAVAVHAQIAKTGYESDLFISNSLIHMYGSCGDIVYAREVFDGMPTKMSVSWNSMLDGYAKCGEMNMARQVFEL  154 (440)
Q Consensus        75 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  154 (440)
                      ..|++++|.+.++.+.. .+.....++..+...+...|++++|...+++..                        +++..
T Consensus         4 ~~g~~~~A~~~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al------------------------~~~~~   58 (203)
T 3gw4_A            4 EAHDYALAERQAQALLA-HPATASGARFMLGYVYAFMDRFDEARASFQALQ------------------------QQAQK   58 (203)
T ss_dssp             ---CHHHHHHHHHHHHT-STTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHH------------------------HHHHT
T ss_pred             ccccHHHHHHHHHHhcC-ChHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHH------------------------HHHHH
Confidence            45666666664443332 222344555556666666666666655543322                        11111


Q ss_pred             CCC--CchhhHHHHHHHHHhcCCHHHHHHHHHHHHhc----CCCC--CHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCC
Q 039362          155 MPE--RNVVSWSALIDGYVKCGDYKEALVIFEEMRDV----GSKA--NEVTLVSVLCACAHLGALDQGRMMLRYMIDKGL  226 (440)
Q Consensus       155 ~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  226 (440)
                      ...  ....++..+...+...|++++|...+++....    +..|  ....+..+...+...|++++|...+++..+...
T Consensus        59 ~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~  138 (203)
T 3gw4_A           59 SGDHTAEHRALHQVGMVERMAGNWDAARRCFLEERELLASLPEDPLAASANAYEVATVALHFGDLAGARQEYEKSLVYAQ  138 (203)
T ss_dssp             TCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHH
T ss_pred             cCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHH
Confidence            111  13456777788888888888888888876543    2111  234566777788888999999988888764311


Q ss_pred             ---CCc--hhhHHHHHHHHHhcCCHHHHHHHHhhhhh
Q 039362          227 ---SLT--LPLQTSLIDMYAKCGAIKEALIVFHGVEK  258 (440)
Q Consensus       227 ---~~~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  258 (440)
                         .+.  ..++..+..++...|++++|...+++...
T Consensus       139 ~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  175 (203)
T 3gw4_A          139 QADDQVAIACAFRGLGDLAQQEKNLLEAQQHWLRARD  175 (203)
T ss_dssp             HTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             hccchHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHH
Confidence               111  23457788889999999999999887763

>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=98.71  E-value=1e-07  Score=70.84  Aligned_cols=100  Identities=12%  Similarity=-0.087  Sum_probs=53.8

Q ss_pred             cHhhHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcC-CCCc-cHhHHHHHHHH
Q 039362          297 DEITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQM-PLEP-TASMLGSLLTG  374 (440)
Q Consensus       297 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~  374 (440)
                      +...+..+...+...|++++|...|++..... +.+...+..+...+...|++++|...+++. ...| +...+..+..+
T Consensus         8 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~   86 (137)
T 3q49_B            8 SAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLGQC   86 (137)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhC-cCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCchhHHHHHHHHHH
Confidence            34455555556666666666666666655543 113444555555555555555555555554 2223 23445555555


Q ss_pred             HHhcCChhHHHHHHHHHHhcCCC
Q 039362          375 CMNHGKLDLAEIVGKKLVELQPD  397 (440)
Q Consensus       375 ~~~~g~~~~a~~~~~~~~~~~~~  397 (440)
                      +...|++++|+..++++++..|.
T Consensus        87 ~~~~~~~~~A~~~~~~a~~~~p~  109 (137)
T 3q49_B           87 QLEMESYDEAIANLQRAYSLAKE  109 (137)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHhhHHHHHHHHHHHHHHChh
Confidence            55555555555555555555544

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.70  E-value=4.1e-07  Score=68.06  Aligned_cols=99  Identities=13%  Similarity=0.067  Sum_probs=65.4

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHH
Q 039362          161 VSWSALIDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMY  240 (440)
Q Consensus       161 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  240 (440)
                      ..+..+...+.+.|++++|...|++....+ +.+...+..+..++...|++++|...++...+.. +.++..+..+..+|
T Consensus        19 ~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~   96 (142)
T 2xcb_A           19 EQLYALGFNQYQAGKWDDAQKIFQALCMLD-HYDARYFLGLGACRQSLGLYEQALQSYSYGALMD-INEPRFPFHAAECH   96 (142)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHHHHHHH
Confidence            345555666677777777777777766653 3455566666666777777777777777776665 55566666667777


Q ss_pred             HhcCCHHHHHHHHhhhhhcCC
Q 039362          241 AKCGAIKEALIVFHGVEKHQS  261 (440)
Q Consensus       241 ~~~g~~~~A~~~~~~~~~~~~  261 (440)
                      ...|++++|...|+.+....|
T Consensus        97 ~~~g~~~~A~~~~~~al~~~p  117 (142)
T 2xcb_A           97 LQLGDLDGAESGFYSARALAA  117 (142)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHhCC
Confidence            777777777777776665544

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.70  E-value=6.5e-08  Score=74.56  Aligned_cols=110  Identities=13%  Similarity=-0.005  Sum_probs=93.5

Q ss_pred             ccHhhHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcC-CCCc-cHhHHHHHHH
Q 039362          296 PDEITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQM-PLEP-TASMLGSLLT  373 (440)
Q Consensus       296 p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~  373 (440)
                      .+...+..+...+...|++++|+..|++.++.. +.+...|..+..+|...|++++|+..+++. .+.| +...|..+..
T Consensus         9 ~~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~   87 (164)
T 3sz7_A            9 PESDKLKSEGNAAMARKEYSKAIDLYTQALSIA-PANPIYLSNRAAAYSASGQHEKAAEDAELATVVDPKYSKAWSRLGL   87 (164)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHH
Confidence            345678888889999999999999999999864 226678889999999999999999999988 4455 4678889999


Q ss_pred             HHHhcCChhHHHHHHHHHHhcCCCCCchHHHHH
Q 039362          374 GCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLS  406 (440)
Q Consensus       374 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~  406 (440)
                      ++...|++++|+..|+++++.+|.++..+...+
T Consensus        88 ~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~  120 (164)
T 3sz7_A           88 ARFDMADYKGAKEAYEKGIEAEGNGGSDAMKRG  120 (164)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHSSSCCHHHHHH
T ss_pred             HHHHccCHHHHHHHHHHHHHhCCCchHHHHHHH
Confidence            999999999999999999999999988654443

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.70  E-value=4.8e-07  Score=81.92  Aligned_cols=162  Identities=6%  Similarity=-0.183  Sum_probs=81.6

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHcC-CCccH----hhHHHHHHHHHcCCChHHHHHHHHHHhhc----CCCC-Ccch
Q 039362          266 WNAMIGGLAMHGFVKESLELFTEMQIVG-ITPDE----ITFLGLLSACAHGGLVMEAWYFFKSLGKR----GMVP-KSEH  335 (440)
Q Consensus       266 ~~~l~~~~~~~~~~~~a~~~~~~m~~~~-~~p~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~  335 (440)
                      +..++..|...|++++|.+.+..+...- ..++.    .+.+.+...+...|+++.+..++......    +..+ -..+
T Consensus        58 l~~l~~~y~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~  137 (434)
T 4b4t_Q           58 ILELGQLYVTMGAKDKLREFIPHSTEYMMQFAKSKTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHSL  137 (434)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHTHHHHHTSCHHHHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccchHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHHH
Confidence            3444555555555555555555443210 01111    11122222223445566666665554432    1111 1234


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHhcC-----C--CCc-cHhHHHHHHHHHHhcCChhHHHHHHHHHHhcC---CCCC----c
Q 039362          336 YACMVDALSRAGQVTEAYEFICQM-----P--LEP-TASMLGSLLTGCMNHGKLDLAEIVGKKLVELQ---PDHD----G  400 (440)
Q Consensus       336 ~~~l~~~~~~~~~~~~a~~~~~~~-----~--~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~---~~~~----~  400 (440)
                      +..+...|...|++++|..++++.     +  -+| ...++..++..|...|++++|..+++++....   +.++    .
T Consensus       138 ~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~  217 (434)
T 4b4t_Q          138 SIKLATLHYQKKQYKDSLALINDLLREFKKLDDKPSLVDVHLLESKVYHKLRNLAKSKASLTAARTAANSIYCPTQTVAE  217 (434)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSSCSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHH
T ss_pred             HHHHHHHHHHccChHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcCCCchHHHHH
Confidence            455666666666666666666554     1  112 23456666666777777777777777666543   1111    2


Q ss_pred             hHHHHHHHHHhccChHHHHHHHHHHHh
Q 039362          401 RYVGLSNVYAIFKRWDEARTTREAMET  427 (440)
Q Consensus       401 ~~~~l~~~~~~~g~~~~A~~~~~~~~~  427 (440)
                      .+..++..+...|++++|...+.+..+
T Consensus       218 ~~~~~g~~~~~~~~y~~A~~~~~~a~~  244 (434)
T 4b4t_Q          218 LDLMSGILHCEDKDYKTAFSYFFESFE  244 (434)
T ss_dssp             HHHHHHHHTTSSSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence            344555666666777777666655543

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.69  E-value=1.6e-07  Score=70.77  Aligned_cols=108  Identities=12%  Similarity=-0.058  Sum_probs=57.3

Q ss_pred             HhhHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCC----cchHHHHHHHHHhcCCHHHHHHHHhcC-CCCc-cHhHHHHH
Q 039362          298 EITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPK----SEHYACMVDALSRAGQVTEAYEFICQM-PLEP-TASMLGSL  371 (440)
Q Consensus       298 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l  371 (440)
                      ...+..+...+...|++++|...|++..+..  |+    ...+..+...|...|++++|...+++. ...| +...+..+
T Consensus        28 ~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~  105 (148)
T 2dba_A           28 VEQLRKEGNELFKCGDYGGALAAYTQALGLD--ATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKDGGDVKALYRR  105 (148)
T ss_dssp             HHHHHHHHHHHHTTTCHHHHHHHHHHHHTSC--CCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSCCHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHHHHHHc--ccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCccCHHHHHHH
Confidence            3445555555566666666666666665532  33    344555555555555555555555554 2223 33445555


Q ss_pred             HHHHHhcCChhHHHHHHHHHHhcCCCCCchHHHHHH
Q 039362          372 LTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSN  407 (440)
Q Consensus       372 ~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~  407 (440)
                      ..++...|++++|...++++++.+|.++..+..+..
T Consensus       106 a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~  141 (148)
T 2dba_A          106 SQALEKLGRLDQAVLDLQRCVSLEPKNKVFQEALRN  141 (148)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHCSSCHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHH
Confidence            555555555555555555555555555444444333

>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=98.69  E-value=7.3e-08  Score=76.90  Aligned_cols=120  Identities=10%  Similarity=-0.028  Sum_probs=63.8

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCC---------------HHHHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 039362          160 VVSWSALIDGYVKCGDYKEALVIFEEMRDVGSKAN---------------EVTLVSVLCACAHLGALDQGRMMLRYMIDK  224 (440)
Q Consensus       160 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---------------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  224 (440)
                      ...+..+...+...|++++|+..|++.........               ...+..+..++...|++++|...++...+.
T Consensus        38 ~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~  117 (198)
T 2fbn_A           38 AFDIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLKI  117 (198)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccchhhHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh
Confidence            34455666677777777777777777765421100               134445555555555666665555555554


Q ss_pred             CCCCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCC-chhhHHHHHHHHHhcCChH
Q 039362          225 GLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQS-DVLIWNAMIGGLAMHGFVK  280 (440)
Q Consensus       225 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~  280 (440)
                      . +.+...+..+..+|...|++++|...|++.....| +...+..+...+...++..
T Consensus       118 ~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~  173 (198)
T 2fbn_A          118 D-KNNVKALYKLGVANMYFGFLEEAKENLYKAASLNPNNLDIRNSYELCVNKLKEAR  173 (198)
T ss_dssp             S-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHH
T ss_pred             C-cccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHHHHH
Confidence            3 34445555555555555555555555555554444 2333444444444333333

>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=98.69  E-value=2.8e-07  Score=66.15  Aligned_cols=108  Identities=15%  Similarity=0.107  Sum_probs=59.6

Q ss_pred             hHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcC-CCCc-cHhHHHHHHHHHHh
Q 039362          300 TFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQM-PLEP-TASMLGSLLTGCMN  377 (440)
Q Consensus       300 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~  377 (440)
                      .+..+...+...|++++|...+++..... +.+...+..+...+...|++++|...+++. ...| +...+..+..++..
T Consensus         6 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~   84 (118)
T 1elw_A            6 ELKEKGNKALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAALEF   84 (118)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhCcccHHHHHHHHHHHHH
Confidence            34444455555555555555555555432 113444455555555555555555555554 2223 34555566666666


Q ss_pred             cCChhHHHHHHHHHHhcCCCCCchHHHHHHH
Q 039362          378 HGKLDLAEIVGKKLVELQPDHDGRYVGLSNV  408 (440)
Q Consensus       378 ~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~  408 (440)
                      .|++++|...++++.+.+|.++..+..+..+
T Consensus        85 ~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~  115 (118)
T 1elw_A           85 LNRFEEAKRTYEEGLKHEANNPQLKEGLQNM  115 (118)
T ss_dssp             TTCHHHHHHHHHHHHTTCTTCHHHHHHHHHH
T ss_pred             HhhHHHHHHHHHHHHHcCCCCHHHHHHHHHh
Confidence            6777777777777776666665555544443

>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=98.68  E-value=8.6e-07  Score=64.67  Aligned_cols=96  Identities=13%  Similarity=0.036  Sum_probs=51.5

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHH
Q 039362          162 SWSALIDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYA  241 (440)
Q Consensus       162 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  241 (440)
                      .+..+...+.+.|++++|+..|++..+.. +.+...+..+..++...|++++|...+++..+.. +.+...+..+..++.
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            34445555555666666666665555442 3344455555555555555555555555555544 344445555555555


Q ss_pred             hcCCHHHHHHHHhhhhhc
Q 039362          242 KCGAIKEALIVFHGVEKH  259 (440)
Q Consensus       242 ~~g~~~~A~~~~~~~~~~  259 (440)
                      ..|++++|...|++..+.
T Consensus        84 ~~~~~~~A~~~~~~al~~  101 (126)
T 3upv_A           84 AVKEYASALETLDAARTK  101 (126)
T ss_dssp             HTTCHHHHHHHHHHHHHH
T ss_pred             HHhCHHHHHHHHHHHHHh
Confidence            555555555555555443

>4gcn_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; HET: PGE; 1.85A {Caenorhabditis elegans}

Probab=98.67  E-value=6.6e-07  Score=65.37  Aligned_cols=24  Identities=4%  Similarity=-0.027  Sum_probs=11.0

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHH
Q 039362          268 AMIGGLAMHGFVKESLELFTEMQI  291 (440)
Q Consensus       268 ~l~~~~~~~~~~~~a~~~~~~m~~  291 (440)
                      .+..++...|++++|++.|++...
T Consensus        88 ~lg~~~~~~~~~~~A~~~~~kal~  111 (127)
T 4gcn_A           88 RAGNAFQKQNDLSLAVQWFHRSLS  111 (127)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHh
Confidence            334444444445555544444443

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.65  E-value=1.2e-07  Score=69.58  Aligned_cols=98  Identities=16%  Similarity=0.074  Sum_probs=60.9

Q ss_pred             HHHHHHHHcCCChHHHHHHHHHHhhcCCCCCc----chHHHHHHHHHhcCCHHHHHHHHhcC-CCCcc----HhHHHHHH
Q 039362          302 LGLLSACAHGGLVMEAWYFFKSLGKRGMVPKS----EHYACMVDALSRAGQVTEAYEFICQM-PLEPT----ASMLGSLL  372 (440)
Q Consensus       302 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p~----~~~~~~l~  372 (440)
                      ..+...+...|++++|...|+.+.+..  |+.    ..+..+..++...|++++|...+++. ...|+    ...+..+.
T Consensus         6 ~~~a~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~la   83 (129)
T 2xev_A            6 YNVAFDALKNGKYDDASQLFLSFLELY--PNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRYPTHDKAAGGLLKLG   83 (129)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC--SSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHH
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHHHC--CCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHCCCCcccHHHHHHHH
Confidence            344555666777777777777776643  222    35556666677777777777777665 22332    34455666


Q ss_pred             HHHHhcCChhHHHHHHHHHHhcCCCCCch
Q 039362          373 TGCMNHGKLDLAEIVGKKLVELQPDHDGR  401 (440)
Q Consensus       373 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~  401 (440)
                      .++...|++++|...++++++..|.++..
T Consensus        84 ~~~~~~g~~~~A~~~~~~~~~~~p~~~~~  112 (129)
T 2xev_A           84 LSQYGEGKNTEAQQTLQQVATQYPGSDAA  112 (129)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHSTTSHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHCCCChHH
Confidence            66667777777777777777766665543

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.65  E-value=3.3e-07  Score=70.56  Aligned_cols=96  Identities=10%  Similarity=-0.060  Sum_probs=76.5

Q ss_pred             chhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHH
Q 039362          262 DVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVD  341 (440)
Q Consensus       262 ~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  341 (440)
                      +...+..+...+...|++++|+..|++..+.. +.+...+..+..++...|++++|+..++++++.. +.+...|..+..
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            45667778888888888888888888888764 4466778888888888888888888888888864 224667788888


Q ss_pred             HHHhcCCHHHHHHHHhcC
Q 039362          342 ALSRAGQVTEAYEFICQM  359 (440)
Q Consensus       342 ~~~~~~~~~~a~~~~~~~  359 (440)
                      +|...|++++|.+.|++.
T Consensus        88 ~~~~~g~~~~A~~~~~~a  105 (164)
T 3sz7_A           88 ARFDMADYKGAKEAYEKG  105 (164)
T ss_dssp             HHHHTTCHHHHHHHHHHH
T ss_pred             HHHHccCHHHHHHHHHHH
Confidence            888888888888888877

>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=98.62  E-value=2.5e-06  Score=61.06  Aligned_cols=99  Identities=14%  Similarity=0.020  Sum_probs=53.3

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHH
Q 039362          161 VSWSALIDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMY  240 (440)
Q Consensus       161 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  240 (440)
                      ..+..+...+...|++++|...+++..... +.+...+..+..++...|++++|...+++..+.. +.+...+..+..++
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            344455555556666666666666655442 2244455555555555566666666655555543 33444555555555


Q ss_pred             HhcCCHHHHHHHHhhhhhcCC
Q 039362          241 AKCGAIKEALIVFHGVEKHQS  261 (440)
Q Consensus       241 ~~~g~~~~A~~~~~~~~~~~~  261 (440)
                      ...|++++|...+++..+..|
T Consensus        83 ~~~~~~~~A~~~~~~~~~~~~  103 (118)
T 1elw_A           83 EFLNRFEEAKRTYEEGLKHEA  103 (118)
T ss_dssp             HHTTCHHHHHHHHHHHHTTCT
T ss_pred             HHHhhHHHHHHHHHHHHHcCC
Confidence            555555555555555554433

>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=98.62  E-value=1.2e-07  Score=70.77  Aligned_cols=106  Identities=12%  Similarity=-0.086  Sum_probs=67.0

Q ss_pred             HHHHHHHHHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcCCCCc-cHhHHHHHHHHHHhcC
Q 039362          301 FLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQMPLEP-TASMLGSLLTGCMNHG  379 (440)
Q Consensus       301 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~p-~~~~~~~l~~~~~~~g  379 (440)
                      +......+.+.|++++|+..|++.++..  |+...-                    +.....| +...|..+..++.+.|
T Consensus        14 ~~~~G~~l~~~g~~eeAi~~Y~kAL~l~--p~~~~~--------------------~a~~~~~~~a~a~~n~g~al~~Lg   71 (159)
T 2hr2_A           14 ALSDAQRQLVAGEYDEAAANCRRAMEIS--HTMPPE--------------------EAFDHAGFDAFCHAGLAEALAGLR   71 (159)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHH--TTSCTT--------------------SCCCHHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHhhC--CCCcch--------------------hhhhhccchHHHHHHHHHHHHHCC
Confidence            4445555566677777777777766642  221000                    0000000 2236777777777777


Q ss_pred             ChhHHHHHHHHHHhc-------CCCCCchH----HHHHHHHHhccChHHHHHHHHHHHhc
Q 039362          380 KLDLAEIVGKKLVEL-------QPDHDGRY----VGLSNVYAIFKRWDEARTTREAMETR  428 (440)
Q Consensus       380 ~~~~a~~~~~~~~~~-------~~~~~~~~----~~l~~~~~~~g~~~~A~~~~~~~~~~  428 (440)
                      ++++|+..++++++.       +|++...|    ...+.++...|++++|+..|++.++.
T Consensus        72 r~~eAl~~~~kAL~l~n~~~e~~pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAlel  131 (159)
T 2hr2_A           72 SFDEALHSADKALHYFNRRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEM  131 (159)
T ss_dssp             CHHHHHHHHHHHHHHHHHHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhhhccccCCCchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHhc
Confidence            777777777777777       77777777    77777888888888888887777664

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.60  E-value=6e-07  Score=67.50  Aligned_cols=98  Identities=17%  Similarity=0.080  Sum_probs=62.4

Q ss_pred             CcchHHHHHHHHHhcCCHHHHHHHHhcC-CCCcc----HhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCCchHHHHH
Q 039362          332 KSEHYACMVDALSRAGQVTEAYEFICQM-PLEPT----ASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLS  406 (440)
Q Consensus       332 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~  406 (440)
                      +...+..+...+...|++++|.+.|++. ...|+    ...+..+..++...|++++|+..++++++..|.++..+..++
T Consensus        27 ~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a  106 (148)
T 2dba_A           27 SVEQLRKEGNELFKCGDYGGALAAYTQALGLDATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKDGGDVKALYRRS  106 (148)
T ss_dssp             CHHHHHHHHHHHHTTTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHcccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCccCHHHHHHHH
Confidence            3444555666666666666666666665 44454    455566666666666666666666666666666666666666


Q ss_pred             HHHHhccChHHHHHHHHHHHhcC
Q 039362          407 NVYAIFKRWDEARTTREAMETRG  429 (440)
Q Consensus       407 ~~~~~~g~~~~A~~~~~~~~~~~  429 (440)
                      .++...|++++|...+++..+..
T Consensus       107 ~~~~~~~~~~~A~~~~~~al~~~  129 (148)
T 2dba_A          107 QALEKLGRLDQAVLDLQRCVSLE  129 (148)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHcCCHHHHHHHHHHHHHcC
Confidence            66666666666666666666543

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.60  E-value=9.2e-07  Score=62.71  Aligned_cols=100  Identities=14%  Similarity=0.041  Sum_probs=54.2

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC--chhhHHHHH
Q 039362          160 VVSWSALIDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSL--TLPLQTSLI  237 (440)
Q Consensus       160 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~  237 (440)
                      ...+..+...+...|++++|...+++..+.. +.+...+..+..++...|++++|...+++..+.. +.  +...+..+.
T Consensus         6 ~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~~l~   83 (112)
T 2kck_A            6 PEEYYLEGVLQYDAGNYTESIDLFEKAIQLD-PEESKYWLMKGKALYNLERYEEAVDCYNYVINVI-EDEYNKDVWAAKA   83 (112)
T ss_dssp             TTGGGGHHHHHHSSCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS-CCTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-cccchHHHHHHHH
Confidence            3344455555566666666666666655543 2344455555555555666666666666555543 33  445555555


Q ss_pred             HHHHhc-CCHHHHHHHHhhhhhcCC
Q 039362          238 DMYAKC-GAIKEALIVFHGVEKHQS  261 (440)
Q Consensus       238 ~~~~~~-g~~~~A~~~~~~~~~~~~  261 (440)
                      .++... |++++|.+.++.+....|
T Consensus        84 ~~~~~~~~~~~~A~~~~~~~~~~~p  108 (112)
T 2kck_A           84 DALRYIEGKEVEAEIAEARAKLEHH  108 (112)
T ss_dssp             HHHTTCSSCSHHHHHHHHHHGGGCC
T ss_pred             HHHHHHhCCHHHHHHHHHHHhhccc
Confidence            555555 555555555555554433

>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=98.59  E-value=7.5e-07  Score=65.24  Aligned_cols=99  Identities=14%  Similarity=0.163  Sum_probs=47.6

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCc-------hhhHH
Q 039362          162 SWSALIDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLT-------LPLQT  234 (440)
Q Consensus       162 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-------~~~~~  234 (440)
                      .+..+...+...|++++|...|++..... +.+...+..+..++...|++++|...++.+.+.. +.+       ..++.
T Consensus         6 ~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~   83 (131)
T 1elr_A            6 KEKELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVG-RENREDYRQIAKAYA   83 (131)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH-HHSTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhc-cccchhHHHHHHHHH
Confidence            34445555555556666655555555442 2334444455555555555555555555554432 111       33344


Q ss_pred             HHHHHHHhcCCHHHHHHHHhhhhhcCCc
Q 039362          235 SLIDMYAKCGAIKEALIVFHGVEKHQSD  262 (440)
Q Consensus       235 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~  262 (440)
                      .+..+|...|++++|...|+++.+..|+
T Consensus        84 ~la~~~~~~~~~~~A~~~~~~~~~~~~~  111 (131)
T 1elr_A           84 RIGNSYFKEEKYKDAIHFYNKSLAEHRT  111 (131)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCCC
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHHhCCC
Confidence            4444444444444444444444433333

>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=98.57  E-value=1.5e-06  Score=64.42  Aligned_cols=99  Identities=9%  Similarity=-0.015  Sum_probs=55.2

Q ss_pred             chhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHH
Q 039362          159 NVVSWSALIDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLID  238 (440)
Q Consensus       159 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  238 (440)
                      +...+..+...+...|++++|...|++..... +.+...+..+..++...|++++|...++...+.. +.+...+..+..
T Consensus         8 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~   85 (137)
T 3q49_B            8 SAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLGQ   85 (137)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhC-cCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-chhHHHHHHHHH
Confidence            34455555556666666666666666655543 3344455555555556666666666666555554 344555555555


Q ss_pred             HHHhcCCHHHHHHHHhhhhhc
Q 039362          239 MYAKCGAIKEALIVFHGVEKH  259 (440)
Q Consensus       239 ~~~~~g~~~~A~~~~~~~~~~  259 (440)
                      +|...|++++|...|+++...
T Consensus        86 ~~~~~~~~~~A~~~~~~a~~~  106 (137)
T 3q49_B           86 CQLEMESYDEAIANLQRAYSL  106 (137)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHhhHHHHHHHHHHHHHH
Confidence            555555555555555555443

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.57  E-value=8.2e-08  Score=69.17  Aligned_cols=61  Identities=18%  Similarity=0.068  Sum_probs=29.4

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCCchHHHHHHHHHhccChHHHHHHHHHHHh
Q 039362          367 MLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEARTTREAMET  427 (440)
Q Consensus       367 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  427 (440)
                      .+..+..++...|++++|+..++++++.+|.++.++..++.++...|++++|.+.+++.+.
T Consensus        29 ~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~   89 (117)
T 3k9i_A           29 CYLGLGSTFRTLGEYRKAEAVLANGVKQFPNHQALRVFYAMVLYNLGRYEQGVELLLKIIA   89 (117)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            3444444444444444444444444444444444444444444444444444444444443

>1kt0_A FKBP51, 51 kDa FK506-binding protein; FKBP-like ppiase, TPR repeats, isomerase; 2.70A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 d.26.1.1 PDB: 1kt1_A 3o5d_A

Probab=98.56  E-value=4.5e-07  Score=82.43  Aligned_cols=94  Identities=14%  Similarity=0.056  Sum_probs=73.4

Q ss_pred             cchHHHHHHHHHhcCCHHHHHHHHhcC-CCCc-cHhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCCchHHHHHHHHH
Q 039362          333 SEHYACMVDALSRAGQVTEAYEFICQM-PLEP-TASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYA  410 (440)
Q Consensus       333 ~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~  410 (440)
                      ...|..+..+|.+.|++++|+..++++ .+.| +...|..+..++...|++++|+..|+++++++|.+..++..++.++.
T Consensus       317 ~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~P~~~~a~~~l~~~~~  396 (457)
T 1kt0_A          317 LAAFLNLAMCYLKLREYTKAVECCDKALGLDSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQNKAARLQISMCQK  396 (457)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC----CHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHH
Confidence            356777888888889999998888887 4444 55778888999999999999999999999999999999999999999


Q ss_pred             hccChHHHHH-HHHHHH
Q 039362          411 IFKRWDEART-TREAME  426 (440)
Q Consensus       411 ~~g~~~~A~~-~~~~~~  426 (440)
                      +.|++++|.+ .+++|.
T Consensus       397 ~~~~~~~a~~~~~~~~f  413 (457)
T 1kt0_A          397 KAKEHNERDRRIYANMF  413 (457)
T ss_dssp             HHHHHHHHHHHHHHHC-
T ss_pred             HHHHHHHHHHHHHHHHH
Confidence            9998887764 444443

>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=98.55  E-value=6.2e-06  Score=76.73  Aligned_cols=171  Identities=10%  Similarity=-0.068  Sum_probs=125.4

Q ss_pred             CHHHHHHHHhhhhhcCCc-hhhHHHHHHHHHhcCC----------hHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCC-
Q 039362          245 AIKEALIVFHGVEKHQSD-VLIWNAMIGGLAMHGF----------VKESLELFTEMQIVGITPDEITFLGLLSACAHGG-  312 (440)
Q Consensus       245 ~~~~A~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~----------~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~-  312 (440)
                      ..++|++.++.+....|+ ...|+.-...+...|+          ++++++.++.+.+.. +-+..+|..-...+.+.+ 
T Consensus        44 ~~eeal~~~~~~l~~nP~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~~-pK~y~aW~hR~w~l~~l~~  122 (567)
T 1dce_A           44 LDESVLELTSQILGANPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWHHRCWLLSRLPE  122 (567)
T ss_dssp             CSHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTCSS
T ss_pred             CCHHHHHHHHHHHHHCchhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHccc
Confidence            345667777777766663 4556665555555555          778888888887764 445566776666777777 


Q ss_pred             -ChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcC-CHHHHHHHHhcC-CCCc-cHhHHHHHHHHHHhc----------
Q 039362          313 -LVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAG-QVTEAYEFICQM-PLEP-TASMLGSLLTGCMNH----------  378 (440)
Q Consensus       313 -~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~----------  378 (440)
                       +++++++.++++.+... -+...|+.....+.+.| .++++++.++++ ...| +...|+.....+...          
T Consensus       123 ~~~~~el~~~~k~l~~d~-~N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~p~n~saW~~r~~ll~~l~~~~~~~~~~  201 (567)
T 1dce_A          123 PNWARELELCARFLEADE-RNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFSNYSSWHYRSCLLPQLHPQPDSGPQG  201 (567)
T ss_dssp             CCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCCCHHHHHHHHHHHHHHSCCCCSSSCC
T ss_pred             ccHHHHHHHHHHHHhhcc-ccccHHHHHHHHHHHcCCChHHHHHHHHHHHHHCCCCccHHHHHHHHHHhhcccccccccc
Confidence             56888888888888652 26667777777777777 788888888887 5555 456676666665542          


Q ss_pred             ----CChhHHHHHHHHHHhcCCCCCchHHHHHHHHHhccChHH
Q 039362          379 ----GKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDE  417 (440)
Q Consensus       379 ----g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  417 (440)
                          +.++++++.+++++..+|.+..+|..+...+.+.++.++
T Consensus       202 ~~~~~~~~eel~~~~~ai~~~P~~~saW~y~~~ll~~~~~~~~  244 (567)
T 1dce_A          202 RLPENVLLKELELVQNAFFTDPNDQSAWFYHRWLLGRAEPHDV  244 (567)
T ss_dssp             SSCHHHHHHHHHHHHHHHHHCSSCSHHHHHHHHHHSCCCCCSC
T ss_pred             cccHHHHHHHHHHHHHHHhhCCCCccHHHHHHHHHhcCCCccc
Confidence                567999999999999999999999999999999888655

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.54  E-value=1.2e-06  Score=63.41  Aligned_cols=95  Identities=13%  Similarity=-0.051  Sum_probs=48.9

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHh
Q 039362          163 WSALIDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAK  242 (440)
Q Consensus       163 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  242 (440)
                      +..+...+.+.|++++|...|++..+.. +.+...+..+..++...|++++|+..+++..+.. +.+...+..+..+|..
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            3344445555555555555555555442 2244444555555555555555555555555544 3344455555555555


Q ss_pred             cCCHHHHHHHHhhhhhc
Q 039362          243 CGAIKEALIVFHGVEKH  259 (440)
Q Consensus       243 ~g~~~~A~~~~~~~~~~  259 (440)
                      .|++++|+..|+++.+.
T Consensus        98 ~g~~~~A~~~~~~al~~  114 (121)
T 1hxi_A           98 EHNANAALASLRAWLLS  114 (121)
T ss_dssp             HHHHHHHHHHHHHHHC-
T ss_pred             cCCHHHHHHHHHHHHHh
Confidence            55555555555555433

>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=98.53  E-value=1.5e-06  Score=63.52  Aligned_cols=96  Identities=5%  Similarity=-0.003  Sum_probs=62.1

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCCc--------hhhHH
Q 039362          196 VTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQSD--------VLIWN  267 (440)
Q Consensus       196 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~--------~~~~~  267 (440)
                      ..+..+...+...|++++|...++...+.. +.+...+..+..+|...|++++|...++++....|+        ...+.
T Consensus         5 ~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (131)
T 1elr_A            5 LKEKELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYA   83 (131)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHHH
Confidence            345556666667777777777777776654 455666666777777777777777777766544331        44556


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHc
Q 039362          268 AMIGGLAMHGFVKESLELFTEMQIV  292 (440)
Q Consensus       268 ~l~~~~~~~~~~~~a~~~~~~m~~~  292 (440)
                      .+...+...|++++|.+.|++..+.
T Consensus        84 ~la~~~~~~~~~~~A~~~~~~~~~~  108 (131)
T 1elr_A           84 RIGNSYFKEEKYKDAIHFYNKSLAE  108 (131)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHHh
Confidence            6666666666666666666666654

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.52  E-value=2.5e-07  Score=70.79  Aligned_cols=63  Identities=16%  Similarity=0.009  Sum_probs=45.1

Q ss_pred             hHHHHHHHHHHhcCChhHHHHHHHHHHhcCCC------CCchHHHHHHHHHhccChHHHHHHHHHHHhc
Q 039362          366 SMLGSLLTGCMNHGKLDLAEIVGKKLVELQPD------HDGRYVGLSNVYAIFKRWDEARTTREAMETR  428 (440)
Q Consensus       366 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~------~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  428 (440)
                      ..+..+...+...|++++|...++++.+..+.      ....+..++.++...|++++|.+.+++..+.
T Consensus        90 ~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~  158 (164)
T 3ro3_A           90 QSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEI  158 (164)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence            45566677777788888888888877765321      1235677888888888888888888877653

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.51  E-value=3.8e-07  Score=70.03  Aligned_cols=102  Identities=21%  Similarity=0.039  Sum_probs=64.0

Q ss_pred             HhhHHHHHHHHHcCCChHHHHHHHHHHhhcC------CCC-----------CcchHHHHHHHHHhcCCHHHHHHHHhcC-
Q 039362          298 EITFLGLLSACAHGGLVMEAWYFFKSLGKRG------MVP-----------KSEHYACMVDALSRAGQVTEAYEFICQM-  359 (440)
Q Consensus       298 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~------~~~-----------~~~~~~~l~~~~~~~~~~~~a~~~~~~~-  359 (440)
                      ...+......+.+.|++++|+..|.+.+..-      -.|           +...|..+..+|.+.|++++|+..+++. 
T Consensus        11 a~~~~~~G~~~~~~~~~~~A~~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~A~~~~~~al   90 (162)
T 3rkv_A           11 VEALRQKGNELFVQKDYKEAIDAYRDALTRLDTLILREKPGEPEWVELDRKNIPLYANMSQCYLNIGDLHEAEETSSEVL   90 (162)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCTTSHHHHHHHHTHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHH
Confidence            3456677778888888888888888877640      011           1234555666666666666666666665 


Q ss_pred             CCCc-cHhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCC
Q 039362          360 PLEP-TASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHD  399 (440)
Q Consensus       360 ~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~  399 (440)
                      .+.| +...|..+..++...|++++|...|+++++++|.++
T Consensus        91 ~~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~p~~~  131 (162)
T 3rkv_A           91 KREETNEKALFRRAKARIAAWKLDEAEEDLKLLLRNHPAAA  131 (162)
T ss_dssp             HHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCGGGH
T ss_pred             hcCCcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhcCCCCH
Confidence            3333 345556666666666666666666666666666655

>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=98.49  E-value=3.1e-07  Score=83.83  Aligned_cols=117  Identities=14%  Similarity=0.017  Sum_probs=89.8

Q ss_pred             HHHHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcC-CCCc-cHhHHHHHHHHHHhcCChhH
Q 039362          306 SACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQM-PLEP-TASMLGSLLTGCMNHGKLDL  383 (440)
Q Consensus       306 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~  383 (440)
                      ..+.+.|++++|+..++++.+.. +.+...+..+..+|.+.|++++|++.+++. .+.| +...+..+..++...|++++
T Consensus        14 ~~~~~~g~~~~A~~~~~~Al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~lg~~~~~~g~~~e   92 (477)
T 1wao_1           14 NDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMALGKFRA   92 (477)
T ss_dssp             SSTTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHTCHHH
T ss_pred             HHHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHH
Confidence            34556778888888888777753 224566777888888888888888888877 4455 45778888899999999999


Q ss_pred             HHHHHHHHHhcCCCCCchHHHHHHH--HHhccChHHHHHHHH
Q 039362          384 AEIVGKKLVELQPDHDGRYVGLSNV--YAIFKRWDEARTTRE  423 (440)
Q Consensus       384 a~~~~~~~~~~~~~~~~~~~~l~~~--~~~~g~~~~A~~~~~  423 (440)
                      |+..++++++.+|.+...+..++.+  +.+.|++++|.+.++
T Consensus        93 A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           93 ALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             HHHHHHHHHHHSTTCTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             HHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            9999999999999999888888887  888899999999887

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.48  E-value=7.4e-06  Score=74.04  Aligned_cols=193  Identities=11%  Similarity=0.043  Sum_probs=97.0

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhcCCCCCH----------------HHHHHHHHHHHhcCChHHHHHHHHHHHHcCCC-Cc
Q 039362          167 IDGYVKCGDYKEALVIFEEMRDVGSKANE----------------VTLVSVLCACAHLGALDQGRMMLRYMIDKGLS-LT  229 (440)
Q Consensus       167 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----------------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~  229 (440)
                      ...+.+.|++++|++.|..+.+.......                ..+..+...|...|++++|.+.+..+.+..-. ++
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            45567778888888888887665322111                12455666666666666666666665432101 11


Q ss_pred             h----hhHHHHHHHHHhcCCHHHHHHHHhhhhhc---C---C-chhhHHHHHHHHHhcCChHHHHHHHHHHHHcC--C--
Q 039362          230 L----PLQTSLIDMYAKCGAIKEALIVFHGVEKH---Q---S-DVLIWNAMIGGLAMHGFVKESLELFTEMQIVG--I--  294 (440)
Q Consensus       230 ~----~~~~~l~~~~~~~g~~~~A~~~~~~~~~~---~---~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~--~--  294 (440)
                      .    .+.+.+...+...|+++.|..++......   .   + ...++..+...+...|++++|..+++++...-  .  
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    12222333334455666666666554422   0   1 12344555666666666666666666554321  0  


Q ss_pred             Cc-cHhhHHHHHHHHHcCCChHHHHHHHHHHhhc--CC-CC-C--cchHHHHHHHHHhcCCHHHHHHHHhcC
Q 039362          295 TP-DEITFLGLLSACAHGGLVMEAWYFFKSLGKR--GM-VP-K--SEHYACMVDALSRAGQVTEAYEFICQM  359 (440)
Q Consensus       295 ~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~-~~-~--~~~~~~l~~~~~~~~~~~~a~~~~~~~  359 (440)
                      .| ...++..++..|...|++++|..++++....  .. .| .  ...+..+...+...|++++|...+.+.
T Consensus       171 ~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~g~~~~~~~~y~~A~~~~~~a  242 (434)
T 4b4t_Q          171 KPSLVDVHLLESKVYHKLRNLAKSKASLTAARTAANSIYCPTQTVAELDLMSGILHCEDKDYKTAFSYFFES  242 (434)
T ss_dssp             STHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHTTSSSCHHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcCCCchHHHHHHHHHHHHHHHHHHhHHHHHHHHHHH
Confidence            11 1234555555666666666666666555432  11 11 0  122334444445555555555555443

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.46  E-value=7.9e-06  Score=59.64  Aligned_cols=96  Identities=13%  Similarity=0.011  Sum_probs=50.6

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhcCCCCCH---HHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCc---hhhHHHHHH
Q 039362          165 ALIDGYVKCGDYKEALVIFEEMRDVGSKANE---VTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLT---LPLQTSLID  238 (440)
Q Consensus       165 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~  238 (440)
                      .+...+...|++++|...|+++.... +.+.   ..+..+..++...|++++|...++.+.+.. +.+   ...+..+..
T Consensus         7 ~~a~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~~~~la~   84 (129)
T 2xev_A            7 NVAFDALKNGKYDDASQLFLSFLELY-PNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRY-PTHDKAAGGLLKLGL   84 (129)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC-SSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTSTTHHHHHHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHHC-CCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHC-CCCcccHHHHHHHHH
Confidence            34455556666666666666655542 1111   244445555556666666666666655543 222   344455555


Q ss_pred             HHHhcCCHHHHHHHHhhhhhcCCc
Q 039362          239 MYAKCGAIKEALIVFHGVEKHQSD  262 (440)
Q Consensus       239 ~~~~~g~~~~A~~~~~~~~~~~~~  262 (440)
                      ++...|++++|...|+.+....|+
T Consensus        85 ~~~~~g~~~~A~~~~~~~~~~~p~  108 (129)
T 2xev_A           85 SQYGEGKNTEAQQTLQQVATQYPG  108 (129)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHSTT
T ss_pred             HHHHcCCHHHHHHHHHHHHHHCCC
Confidence            555555555555555555544443

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=98.45  E-value=2.8e-07  Score=80.22  Aligned_cols=150  Identities=11%  Similarity=-0.011  Sum_probs=81.1

Q ss_pred             hhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHH
Q 039362          263 VLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDA  342 (440)
Q Consensus       263 ~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  342 (440)
                      ...+..+...+.+.|++++|...|++....  .|+...       +...++.+++...+.          ..+|..+..+
T Consensus       179 a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~--~p~~~~-------~~~~~~~~~~~~~l~----------~~~~~nla~~  239 (338)
T 2if4_A          179 ADRRKMDGNSLFKEEKLEEAMQQYEMAIAY--MGDDFM-------FQLYGKYQDMALAVK----------NPCHLNIAAC  239 (338)
T ss_dssp             HHHHHHHHHHTCSSSCCHHHHHHHHHHHHH--SCHHHH-------HTCCHHHHHHHHHHH----------THHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHH--hccchh-------hhhcccHHHHHHHHH----------HHHHHHHHHH
Confidence            345666777778888888888888887765  344331       223344444332221          1367788888


Q ss_pred             HHhcCCHHHHHHHHhcC-CCCc-cHhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCCchHHHHHHHH-HhccChHHHH
Q 039362          343 LSRAGQVTEAYEFICQM-PLEP-TASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVY-AIFKRWDEAR  419 (440)
Q Consensus       343 ~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~-~~~g~~~~A~  419 (440)
                      |.+.|++++|+..+++. .+.| +...+..+..++...|++++|+..|+++++.+|.++.++..+..+. ...+..+++.
T Consensus       240 ~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l~p~~~~a~~~L~~l~~~~~~~~~~a~  319 (338)
T 2if4_A          240 LIKLKRYDEAIGHCNIVLTEEEKNPKALFRRGKAKAELGQMDSARDDFRKAQKYAPDDKAIRRELRALAEQEKALYQKQK  319 (338)
T ss_dssp             HHTTTCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC---------------------------
T ss_pred             HHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999999887 4445 5678888999999999999999999999999999888888887773 4457778888


Q ss_pred             HHHHHHHhcCCc
Q 039362          420 TTREAMETRGVK  431 (440)
Q Consensus       420 ~~~~~~~~~~~~  431 (440)
                      ..|++|......
T Consensus       320 ~~~~~~l~~~p~  331 (338)
T 2if4_A          320 EMYKGIFKGKDE  331 (338)
T ss_dssp             ------------
T ss_pred             HHHHHhhCCCCC
Confidence            888888766543

>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=98.44  E-value=9e-07  Score=77.86  Aligned_cols=90  Identities=14%  Similarity=0.068  Sum_probs=77.6

Q ss_pred             CcchHHHHHHHHHhcCCHHHHHHHHhcC-CCCc-cHhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCCchHHHHHHHH
Q 039362          332 KSEHYACMVDALSRAGQVTEAYEFICQM-PLEP-TASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVY  409 (440)
Q Consensus       332 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~  409 (440)
                      +..+|..+..+|.+.|++++|++.+++. ...| +...+..+..++...|++++|+..+++++++.|.+...+..+..++
T Consensus       272 ~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~P~~~~~~~~l~~~~  351 (370)
T 1ihg_A          272 ALSCVLNIGACKLKMSDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQEIAPEDKAIQAELLKVK  351 (370)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccCHHHHHHHHHHHHHhCchhHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHH
Confidence            3456778888899999999999999887 6666 4578888999999999999999999999999999999999999999


Q ss_pred             HhccChHHHHHH
Q 039362          410 AIFKRWDEARTT  421 (440)
Q Consensus       410 ~~~g~~~~A~~~  421 (440)
                      ...++.+++.+.
T Consensus       352 ~~~~~~~~a~k~  363 (370)
T 1ihg_A          352 QKIKAQKDKEKA  363 (370)
T ss_dssp             HHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHH
Confidence            988888877653

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=98.42  E-value=1.2e-06  Score=79.44  Aligned_cols=123  Identities=11%  Similarity=0.010  Sum_probs=96.9

Q ss_pred             HHHcCCChHHHHHHHHHHhhc---CCCCC----cchHHHHHHHHHhcCCHHHHHHHHhcC---------CCCccH-hHHH
Q 039362          307 ACAHGGLVMEAWYFFKSLGKR---GMVPK----SEHYACMVDALSRAGQVTEAYEFICQM---------PLEPTA-SMLG  369 (440)
Q Consensus       307 ~~~~~~~~~~a~~~~~~~~~~---~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~---------~~~p~~-~~~~  369 (440)
                      .+...|++++|+.++++.++.   -+.|+    ..+++.|...|...|++++|..++++.         ...|+. .+++
T Consensus       318 ~~~~qg~~~eA~~l~~~aL~~~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~  397 (490)
T 3n71_A          318 KARSEGLYHEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMAVM  397 (490)
T ss_dssp             HHHTTTCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHH
T ss_pred             HHHhCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHH
Confidence            355778999999888887654   11222    345788889999999999998888875         245554 6788


Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHh-----cCCCCCch---HHHHHHHHHhccChHHHHHHHHHHHhcC
Q 039362          370 SLLTGCMNHGKLDLAEIVGKKLVE-----LQPDHDGR---YVGLSNVYAIFKRWDEARTTREAMETRG  429 (440)
Q Consensus       370 ~l~~~~~~~g~~~~a~~~~~~~~~-----~~~~~~~~---~~~l~~~~~~~g~~~~A~~~~~~~~~~~  429 (440)
                      .|...|...|++++|+.+++++++     ++|++|.+   ...+..++...|++++|..++.++++.-
T Consensus       398 nLa~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~~~  465 (490)
T 3n71_A          398 RAGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMREAA  465 (490)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999999999999987     46777764   4577788888999999999999998753

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.39  E-value=7.2e-06  Score=62.77  Aligned_cols=101  Identities=11%  Similarity=0.044  Sum_probs=54.2

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHHhc-------CC----------CCCHHHHHHHHHHHHhcCChHHHHHHHHHHH
Q 039362          160 VVSWSALIDGYVKCGDYKEALVIFEEMRDV-------GS----------KANEVTLVSVLCACAHLGALDQGRMMLRYMI  222 (440)
Q Consensus       160 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-------~~----------~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  222 (440)
                      ...+......+.+.|++++|+..|.+....       ..          +.+...+..+..++.+.|++++|...++..+
T Consensus        11 a~~~~~~G~~~~~~~~~~~A~~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~A~~~~~~al   90 (162)
T 3rkv_A           11 VEALRQKGNELFVQKDYKEAIDAYRDALTRLDTLILREKPGEPEWVELDRKNIPLYANMSQCYLNIGDLHEAEETSSEVL   90 (162)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCTTSHHHHHHHHTHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHH
Confidence            345666677777888888888888776543       00          1112334444445555555555555555555


Q ss_pred             HcCCCCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCC
Q 039362          223 DKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQS  261 (440)
Q Consensus       223 ~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  261 (440)
                      +.. +.+...+..+..+|...|++++|...|++.....|
T Consensus        91 ~~~-p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~p  128 (162)
T 3rkv_A           91 KRE-ETNEKALFRRAKARIAAWKLDEAEEDLKLLLRNHP  128 (162)
T ss_dssp             HHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCG
T ss_pred             hcC-CcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhcCC
Confidence            443 34444444555555555555555555555444444

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.36  E-value=2.8e-07  Score=66.34  Aligned_cols=91  Identities=14%  Similarity=0.126  Sum_probs=61.4

Q ss_pred             CCChHHHHHHHHHHhhcCC--CCCcchHHHHHHHHHhcCCHHHHHHHHhcC-CCCc-cHhHHHHHHHHHHhcCChhHHHH
Q 039362          311 GGLVMEAWYFFKSLGKRGM--VPKSEHYACMVDALSRAGQVTEAYEFICQM-PLEP-TASMLGSLLTGCMNHGKLDLAEI  386 (440)
Q Consensus       311 ~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~  386 (440)
                      .|++++|+..|+++++.+.  +.+...+..+...|...|++++|+..+++. ...| +...+..+..++...|++++|+.
T Consensus         3 ~g~~~~A~~~~~~al~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~   82 (117)
T 3k9i_A            3 LGLEAQAVPYYEKAIASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQFPNHQALRVFYAMVLYNLGRYEQGVE   82 (117)
T ss_dssp             ----CCCHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHcCCHHHHHH
Confidence            4666777777777766421  123455667777777777777777777776 3334 35667778888888888888888


Q ss_pred             HHHHHHhcCCCCCch
Q 039362          387 VGKKLVELQPDHDGR  401 (440)
Q Consensus       387 ~~~~~~~~~~~~~~~  401 (440)
                      .++++++..|.++..
T Consensus        83 ~~~~al~~~p~~~~~   97 (117)
T 3k9i_A           83 LLLKIIAETSDDETI   97 (117)
T ss_dssp             HHHHHHHHHCCCHHH
T ss_pred             HHHHHHHhCCCcHHH
Confidence            888888888877654

>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=98.34  E-value=7.8e-06  Score=74.29  Aligned_cols=139  Identities=9%  Similarity=-0.028  Sum_probs=77.1

Q ss_pred             ChHHHHHHHhhCCC---CchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCC--------------HHHHHHHHHHHH
Q 039362          144 EMNMARQVFELMPE---RNVVSWSALIDGYVKCGDYKEALVIFEEMRDVGSKAN--------------EVTLVSVLCACA  206 (440)
Q Consensus       144 ~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--------------~~~~~~l~~~~~  206 (440)
                      ++++|...|+...+   .....|..+...+.+.|++++|+..|++..+......              ...|..+..++.
T Consensus       249 ~~~~A~~~~~~~~~~~~~~a~~~~~~G~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~  328 (457)
T 1kt0_A          249 SFEKAKESWEMDTKEKLEQAAIVKEKGTVYFKGGKYMQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYL  328 (457)
T ss_dssp             EEECCCCGGGSCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hcccCcchhhcCHHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444444443332   2345677788888889999999999888876421111              344555555555


Q ss_pred             hcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCC-chhhHHHHHHHHHhcCChHHHH
Q 039362          207 HLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQS-DVLIWNAMIGGLAMHGFVKESL  283 (440)
Q Consensus       207 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~  283 (440)
                      +.|++++|...++++++.. +.+...+..+..+|...|++++|+..|+++.+..| +...+..+..++.+.++.+++.
T Consensus       329 ~~g~~~~A~~~~~~al~~~-p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~P~~~~a~~~l~~~~~~~~~~~~a~  405 (457)
T 1kt0_A          329 KLREYTKAVECCDKALGLD-SANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQNKAARLQISMCQKKAKEHNERD  405 (457)
T ss_dssp             HTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC----CHHHHHHHHHHHHHHHHHHH
T ss_pred             HhcCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            5666666666666555554 44455555555555555555555555555555444 2344444545555544444443

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.33  E-value=6.1e-06  Score=62.87  Aligned_cols=62  Identities=8%  Similarity=-0.067  Sum_probs=29.2

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHHc----CCCc-cHhhHHHHHHHHHcCCChHHHHHHHHHHhh
Q 039362          265 IWNAMIGGLAMHGFVKESLELFTEMQIV----GITP-DEITFLGLLSACAHGGLVMEAWYFFKSLGK  326 (440)
Q Consensus       265 ~~~~l~~~~~~~~~~~~a~~~~~~m~~~----~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  326 (440)
                      .+..+...+...|++++|.+.+++..+.    +..+ ....+..+...+...|++++|...+++..+
T Consensus        91 ~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~  157 (164)
T 3ro3_A           91 SCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLE  157 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            3444445555555555555555554322    1001 112344445555555555555555555443

>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=98.31  E-value=1.6e-06  Score=64.68  Aligned_cols=121  Identities=15%  Similarity=0.004  Sum_probs=78.1

Q ss_pred             hhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHH
Q 039362          263 VLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDA  342 (440)
Q Consensus       263 ~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  342 (440)
                      ...+......+.+.|++++|+..|++..+..  |+...-        .      +.       .. .+.+...|..+..+
T Consensus        11 a~~~~~~G~~l~~~g~~eeAi~~Y~kAL~l~--p~~~~~--------~------a~-------~~-~~~~a~a~~n~g~a   66 (159)
T 2hr2_A           11 AYLALSDAQRQLVAGEYDEAAANCRRAMEIS--HTMPPE--------E------AF-------DH-AGFDAFCHAGLAEA   66 (159)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH--TTSCTT--------S------CC-------CH-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC--CCCcch--------h------hh-------hh-ccchHHHHHHHHHH
Confidence            4456677788899999999999999988753  331000        0      00       00 00011244444444


Q ss_pred             HHhcCCHHHHHHHHhcC--------CCCccH-hHH----HHHHHHHHhcCChhHHHHHHHHHHhcCCCCCchHHHHHH
Q 039362          343 LSRAGQVTEAYEFICQM--------PLEPTA-SML----GSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSN  407 (440)
Q Consensus       343 ~~~~~~~~~a~~~~~~~--------~~~p~~-~~~----~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~  407 (440)
                      +.+.|++++|+..+++.        .+.|+. ..|    .....++...|++++|+..|++++++.|.+......+..
T Consensus        67 l~~Lgr~~eAl~~~~kAL~l~n~~~e~~pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAlel~p~d~~~~~~~~~  144 (159)
T 2hr2_A           67 LAGLRSFDEALHSADKALHYFNRRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEMIEERKGETPGKER  144 (159)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCCSCCTTHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHhhhccccCCCchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHhcCCCcHHHHHHHHH
Confidence            55555555554444443        236654 567    888999999999999999999999999998876654443

>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=98.29  E-value=2.9e-06  Score=77.48  Aligned_cols=120  Identities=11%  Similarity=0.021  Sum_probs=83.1

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCC
Q 039362          166 LIDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGA  245 (440)
Q Consensus       166 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  245 (440)
                      +...+.+.|++++|.+.|++..+.. +.+...+..+..++.+.|++++|...+++..+.. +.+...+..+..+|...|+
T Consensus        12 lg~~~~~~g~~~~A~~~~~~Al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg~~~~~~g~   89 (477)
T 1wao_1           12 QANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMALGK   89 (477)
T ss_dssp             SSSSTTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCC
Confidence            3445566778888888888777663 3456677777778888888888888888887765 5667777778888888888


Q ss_pred             HHHHHHHHhhhhhcCCc-hhhHHHHHHH--HHhcCChHHHHHHHH
Q 039362          246 IKEALIVFHGVEKHQSD-VLIWNAMIGG--LAMHGFVKESLELFT  287 (440)
Q Consensus       246 ~~~A~~~~~~~~~~~~~-~~~~~~l~~~--~~~~~~~~~a~~~~~  287 (440)
                      +++|...|+++.+..|+ ...+..+..+  +.+.|++++|++.++
T Consensus        90 ~~eA~~~~~~al~~~p~~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           90 FRAALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             HHHHHHHHHHHHHHSTTCTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             HHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            88888888887766553 4455555544  677788888888777

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=98.29  E-value=2.2e-07  Score=66.02  Aligned_cols=92  Identities=11%  Similarity=0.006  Sum_probs=71.9

Q ss_pred             cchHHHHHHHHHhcCCHHHHHHHHhcC-CCCc-cHhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCC------CchHHH
Q 039362          333 SEHYACMVDALSRAGQVTEAYEFICQM-PLEP-TASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDH------DGRYVG  404 (440)
Q Consensus       333 ~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~------~~~~~~  404 (440)
                      ...+..+...+...|++++|.+.+++. ...| +...+..+..++...|++++|+..++++++..|.+      ...+..
T Consensus         4 ~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~   83 (111)
T 2l6j_A            4 FEKQKEQGNSLFKQGLYREAVHCYDQLITAQPQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRYTSTAEHVAIRSKLQYR   83 (111)
T ss_dssp             HHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSCSSTTSHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCccHHHHHHHHHHH
Confidence            445666777777888888888888776 3344 55778888888999999999999999999999988      667778


Q ss_pred             HHHHHHhccChHHHHHHHHH
Q 039362          405 LSNVYAIFKRWDEARTTREA  424 (440)
Q Consensus       405 l~~~~~~~g~~~~A~~~~~~  424 (440)
                      ++.++...|++++|.+.+++
T Consensus        84 ~~~~~~~~~~~~~a~~~~~~  103 (111)
T 2l6j_A           84 LELAQGAVGSVQIPVVEVDE  103 (111)
T ss_dssp             HHHHHHHHHCCCCCSSSSSS
T ss_pred             HHHHHHHHHhHhhhHhHHHH
Confidence            88888888888877766543

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=98.27  E-value=4e-06  Score=58.15  Aligned_cols=65  Identities=25%  Similarity=0.223  Sum_probs=52.9

Q ss_pred             cHhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCCchHHHHHHHHHhccChHHHHHHHHHHHhc
Q 039362          364 TASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEARTTREAMETR  428 (440)
Q Consensus       364 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  428 (440)
                      +...+..+...+...|++++|+..|+++++.+|.++.+|..++.+|...|++++|.+.+++.++.
T Consensus         6 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l   70 (100)
T 3ma5_A            6 DPFTRYALAQEHLKHDNASRALALFEELVETDPDYVGTYYHLGKLYERLDRTDDAIDTYAQGIEV   70 (100)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            45667778888888888888888888888888888888888888888888888888888877654

>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=98.27  E-value=1e-05  Score=71.05  Aligned_cols=136  Identities=8%  Similarity=-0.041  Sum_probs=68.2

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHH
Q 039362          161 VSWSALIDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMY  240 (440)
Q Consensus       161 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  240 (440)
                      ..+..+...+.+.|++++|+..|++..+.-  +...          ....       .+...+.. +.+..++..+..+|
T Consensus       224 ~~~~~~g~~~~~~g~~~~Ai~~y~kAl~~~--~~~~----------~~~~-------~~~~~~~~-~~~~~~~~nla~~~  283 (370)
T 1ihg_A          224 EDLKNIGNTFFKSQNWEMAIKKYTKVLRYV--EGSR----------AAAE-------DADGAKLQ-PVALSCVLNIGACK  283 (370)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHH--HHHH----------HHSC-------HHHHGGGH-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHHh--hcCc----------cccC-------hHHHHHHH-HHHHHHHHHHHHHH
Confidence            346667777888888888888888776420  0000          0000       00000011 22334455555555


Q ss_pred             HhcCCHHHHHHHHhhhhhcCC-chhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHH
Q 039362          241 AKCGAIKEALIVFHGVEKHQS-DVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEA  317 (440)
Q Consensus       241 ~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a  317 (440)
                      .+.|++++|+..++++.+..| +...+..+..+|...|++++|+..|++..+.. +.+...+..+...+...++.+++
T Consensus       284 ~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~-P~~~~~~~~l~~~~~~~~~~~~a  360 (370)
T 1ihg_A          284 LKMSDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQEIA-PEDKAIQAELLKVKQKIKAQKDK  360 (370)
T ss_dssp             HHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHH
T ss_pred             HhccCHHHHHHHHHHHHHhCchhHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHH
Confidence            555555555555555555444 34455555555555666666666665555442 22333444444444444444444

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=98.25  E-value=5.3e-06  Score=72.09  Aligned_cols=145  Identities=14%  Similarity=0.042  Sum_probs=58.1

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHH
Q 039362          161 VSWSALIDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMY  240 (440)
Q Consensus       161 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  240 (440)
                      ..+..+...+.+.|++++|...|++....  .|+...       +...++.+++...+          ....+..+..+|
T Consensus       180 ~~~~~~g~~~~~~g~~~~A~~~y~~Al~~--~p~~~~-------~~~~~~~~~~~~~l----------~~~~~~nla~~~  240 (338)
T 2if4_A          180 DRRKMDGNSLFKEEKLEEAMQQYEMAIAY--MGDDFM-------FQLYGKYQDMALAV----------KNPCHLNIAACL  240 (338)
T ss_dssp             HHHHHHHHHTCSSSCCHHHHHHHHHHHHH--SCHHHH-------HTCCHHHHHHHHHH----------HTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHH--hccchh-------hhhcccHHHHHHHH----------HHHHHHHHHHHH
Confidence            34556666777777777777777776654  333221       11112222221111          012445555555


Q ss_pred             HhcCCHHHHHHHHhhhhhcCC-chhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcc-HhhHHHHHHH-HHcCCChHHH
Q 039362          241 AKCGAIKEALIVFHGVEKHQS-DVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPD-EITFLGLLSA-CAHGGLVMEA  317 (440)
Q Consensus       241 ~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~~~~~l~~~-~~~~~~~~~a  317 (440)
                      .+.|++++|+..++++.+..| +...|..+..+|...|++++|...|++..+.  .|+ ...+..+... ....+..+.+
T Consensus       241 ~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l--~p~~~~a~~~L~~l~~~~~~~~~~a  318 (338)
T 2if4_A          241 IKLKRYDEAIGHCNIVLTEEEKNPKALFRRGKAKAELGQMDSARDDFRKAQKY--APDDKAIRRELRALAEQEKALYQKQ  318 (338)
T ss_dssp             HTTTCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC----------------------------
T ss_pred             HHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            555566666555555555444 3445555555555666666666665555432  222 2222222222 1223444555


Q ss_pred             HHHHHHHhh
Q 039362          318 WYFFKSLGK  326 (440)
Q Consensus       318 ~~~~~~~~~  326 (440)
                      ...|..+..
T Consensus       319 ~~~~~~~l~  327 (338)
T 2if4_A          319 KEMYKGIFK  327 (338)
T ss_dssp             ---------
T ss_pred             HHHHHHhhC
Confidence            555555544

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=98.19  E-value=4.7e-06  Score=59.56  Aligned_cols=81  Identities=9%  Similarity=-0.035  Sum_probs=46.7

Q ss_pred             HHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcC-CCCc-cHhHHHHHHHHHHhcCChhHHHHHHHHHHh
Q 039362          316 EAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQM-PLEP-TASMLGSLLTGCMNHGKLDLAEIVGKKLVE  393 (440)
Q Consensus       316 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  393 (440)
                      .|+..|+++.+.. +.+...+..+...|...|++++|...+++. ...| +...|..+..++...|++++|...|+++++
T Consensus         3 ~a~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~   81 (115)
T 2kat_A            3 AITERLEAMLAQG-TDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFDPTYSVAWKWLGKTLQGQGDRAGARQAWESGLA   81 (115)
T ss_dssp             CHHHHHHHHHTTT-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhC-CCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            4555566655532 123445556666666666666666666665 3333 334555666666666666666666666666


Q ss_pred             cCCC
Q 039362          394 LQPD  397 (440)
Q Consensus       394 ~~~~  397 (440)
                      ..|.
T Consensus        82 ~~~~   85 (115)
T 2kat_A           82 AAQS   85 (115)
T ss_dssp             HHHH
T ss_pred             hccc
Confidence            5543

>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=98.16  E-value=1.2e-06  Score=65.15  Aligned_cols=96  Identities=13%  Similarity=0.014  Sum_probs=46.6

Q ss_pred             cCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcCCCCccHhHHHHHHHHHHhcCChhHHHHHHH
Q 039362          310 HGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQMPLEPTASMLGSLLTGCMNHGKLDLAEIVGK  389 (440)
Q Consensus       310 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~  389 (440)
                      +.+.+++|...++...+.. +.+...|..+..++...++++.+...+                      +.+++|+..|+
T Consensus        14 r~~~feeA~~~~~~Ai~l~-P~~aea~~n~G~~l~~l~~~~~g~~al----------------------~~~~eAi~~le   70 (158)
T 1zu2_A           14 RILLFEQIRQDAENTYKSN-PLDADNLTRWGGVLLELSQFHSISDAK----------------------QMIQEAITKFE   70 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHSCHHHHH----------------------HHHHHHHHHHH
T ss_pred             HHhHHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHhcccchhhhhH----------------------hHHHHHHHHHH
Confidence            3445566666666666543 124455555555555555433111100                      01335555555


Q ss_pred             HHHhcCCCCCchHHHHHHHHHhcc-----------ChHHHHHHHHHHHhc
Q 039362          390 KLVELQPDHDGRYVGLSNVYAIFK-----------RWDEARTTREAMETR  428 (440)
Q Consensus       390 ~~~~~~~~~~~~~~~l~~~~~~~g-----------~~~~A~~~~~~~~~~  428 (440)
                      ++++++|.+..+|..++.+|...|           ++++|.+.|++.++.
T Consensus        71 ~AL~ldP~~~~A~~~LG~ay~~lg~l~P~~~~a~g~~~eA~~~~~kAl~l  120 (158)
T 1zu2_A           71 EALLIDPKKDEAVWCIGNAYTSFAFLTPDETEAKHNFDLATQFFQQAVDE  120 (158)
T ss_dssp             HHHHHCTTCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHhCcCcHHHHHHHHHHHHHhcccCcchhhhhccHHHHHHHHHHHHHh
Confidence            555555555555555555555442           455555555555443

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=98.14  E-value=1.5e-05  Score=53.94  Aligned_cols=73  Identities=19%  Similarity=0.098  Sum_probs=61.3

Q ss_pred             CccHhHHHHHHHHHHhcCC---hhHHHHHHHHHHhcCCCCCchHHHHHHHHHhccChHHHHHHHHHHHhcCCccCCC
Q 039362          362 EPTASMLGSLLTGCMNHGK---LDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEARTTREAMETRGVKKYPG  435 (440)
Q Consensus       362 ~p~~~~~~~l~~~~~~~g~---~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~  435 (440)
                      .+++..+..+..++...++   .++|..+++++++.+|.++.....++..+.+.|++++|...|+++.+.... .|.
T Consensus         3 p~~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~dp~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~~p~-~~~   78 (93)
T 3bee_A            3 AVTATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLEPYNEAALSLIANDHFISFRFQEAIDTWVLLLDSNDP-NLD   78 (93)
T ss_dssp             CCCHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTCCCT-TCC
T ss_pred             CCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC-Ccc
Confidence            3466777777777764444   799999999999999999999999999999999999999999999988765 443

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=98.12  E-value=8.5e-06  Score=55.14  Aligned_cols=80  Identities=24%  Similarity=0.256  Sum_probs=51.5

Q ss_pred             chHHHHHHHHHhcCCHHHHHHHHhcC-CCCc-cHhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCCchHHHHHHHHHh
Q 039362          334 EHYACMVDALSRAGQVTEAYEFICQM-PLEP-TASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAI  411 (440)
Q Consensus       334 ~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~  411 (440)
                      ..+..+...+...|++++|...+++. ...| +...+..+..++...|++++|...++++.+.+|.++..+..++.++..
T Consensus        10 ~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~l~~~~~~   89 (91)
T 1na3_A           10 EAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAKQNLGNAKQK   89 (91)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHh
Confidence            34445555566666666666666655 2223 345566677777777777777777777777777777777777766655


Q ss_pred             cc
Q 039362          412 FK  413 (440)
Q Consensus       412 ~g  413 (440)
                      .|
T Consensus        90 ~g   91 (91)
T 1na3_A           90 QG   91 (91)
T ss_dssp             HC
T ss_pred             cC
Confidence            43

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=98.07  E-value=1.6e-05  Score=56.16  Aligned_cols=68  Identities=10%  Similarity=-0.003  Sum_probs=62.8

Q ss_pred             ccHhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCCchHHHHHHHHHhccChHHHHHHHHHHHhcCC
Q 039362          363 PTASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEARTTREAMETRGV  430 (440)
Q Consensus       363 p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  430 (440)
                      ++...+..+...+...|++++|+..++++++..|.++..+..++.++...|++++|.+.+++.++...
T Consensus         2 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p   69 (111)
T 2l6j_A            2 SQFEKQKEQGNSLFKQGLYREAVHCYDQLITAQPQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRYTS   69 (111)
T ss_dssp             THHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSCS
T ss_pred             chHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCC
Confidence            45677888999999999999999999999999999999999999999999999999999999988654

>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=98.02  E-value=4e-05  Score=56.64  Aligned_cols=88  Identities=14%  Similarity=-0.052  Sum_probs=41.2

Q ss_pred             HHHHHhcCCHHHHHHHHhcCCCCccHhHHHHHHHHHHh----cCChhHHHHHHHHHHhcCCCCCchHHHHHHHHHh----
Q 039362          340 VDALSRAGQVTEAYEFICQMPLEPTASMLGSLLTGCMN----HGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAI----  411 (440)
Q Consensus       340 ~~~~~~~~~~~~a~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~----  411 (440)
                      ...|...+.+++|.++|++.-...++.....|...|..    .+++++|...|+++.+.+  ++.....++.+|..    
T Consensus        32 g~~y~~g~~~~~A~~~~~~Aa~~g~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g--~~~a~~~Lg~~y~~G~g~  109 (138)
T 1klx_A           32 SLVSNSQINKQKLFQYLSKACELNSGNGCRFLGDFYENGKYVKKDLRKAAQYYSKACGLN--DQDGCLILGYKQYAGKGV  109 (138)
T ss_dssp             HHHTCTTSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT--CHHHHHHHHHHHHHTSSS
T ss_pred             HHHHHcCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHcCC--CHHHHHHHHHHHHCCCCC
Confidence            33333334444444444443111233333444444443    455555555555555442  33345555555555    


Q ss_pred             ccChHHHHHHHHHHHhcC
Q 039362          412 FKRWDEARTTREAMETRG  429 (440)
Q Consensus       412 ~g~~~~A~~~~~~~~~~~  429 (440)
                      .+++++|.+.+++..+.|
T Consensus       110 ~~d~~~A~~~~~~Aa~~g  127 (138)
T 1klx_A          110 VKNEKQAVKTFEKACRLG  127 (138)
T ss_dssp             CCCHHHHHHHHHHHHHTT
T ss_pred             CcCHHHHHHHHHHHHHCC
Confidence            455555555555555544

>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=98.01  E-value=0.00033  Score=65.19  Aligned_cols=172  Identities=7%  Similarity=-0.063  Sum_probs=99.6

Q ss_pred             HHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCC----------hHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcC-
Q 039362          176 YKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGA----------LDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCG-  244 (440)
Q Consensus       176 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~----------~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-  244 (440)
                      .++|++.++++...+ +-+...|+.--.++...|+          ++++...++.+.+.+ +.+..+|..-..++.+.| 
T Consensus        45 ~eeal~~~~~~l~~n-P~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~~-pK~y~aW~hR~w~l~~l~~  122 (567)
T 1dce_A           45 DESVLELTSQILGAN-PDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWHHRCWLLSRLPE  122 (567)
T ss_dssp             SHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTCSS
T ss_pred             CHHHHHHHHHHHHHC-chhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHccc
Confidence            345566666665543 2233334433333434444          566666666666655 555566666566666666 


Q ss_pred             -CHHHHHHHHhhhhhcCC-chhhHHHHHHHHHhcC-ChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcC----------
Q 039362          245 -AIKEALIVFHGVEKHQS-DVLIWNAMIGGLAMHG-FVKESLELFTEMQIVGITPDEITFLGLLSACAHG----------  311 (440)
Q Consensus       245 -~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~-~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~----------  311 (440)
                       ++++++..++++.+..| +...|+...-.+.+.| .++++++.++++.+.. +-|...|......+.+.          
T Consensus       123 ~~~~~el~~~~k~l~~d~~N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~-p~n~saW~~r~~ll~~l~~~~~~~~~~  201 (567)
T 1dce_A          123 PNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN-FSNYSSWHYRSCLLPQLHPQPDSGPQG  201 (567)
T ss_dssp             CCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTT-CCCHHHHHHHHHHHHHHSCCCCSSSCC
T ss_pred             ccHHHHHHHHHHHHhhccccccHHHHHHHHHHHcCCChHHHHHHHHHHHHHC-CCCccHHHHHHHHHHhhcccccccccc
Confidence             55666666666665544 4555666555555666 6666666666665543 33444555444444331          


Q ss_pred             ----CChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHH
Q 039362          312 ----GLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTE  351 (440)
Q Consensus       312 ----~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  351 (440)
                          +.++++.+.+.+++... +-+...|..+...+.+.++.++
T Consensus       202 ~~~~~~~~eel~~~~~ai~~~-P~~~saW~y~~~ll~~~~~~~~  244 (567)
T 1dce_A          202 RLPENVLLKELELVQNAFFTD-PNDQSAWFYHRWLLGRAEPHDV  244 (567)
T ss_dssp             SSCHHHHHHHHHHHHHHHHHC-SSCSHHHHHHHHHHSCCCCCSC
T ss_pred             cccHHHHHHHHHHHHHHHhhC-CCCccHHHHHHHHHhcCCCccc
Confidence                45678888888888754 2266777777777777776444

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=97.99  E-value=5.3e-05  Score=68.82  Aligned_cols=123  Identities=9%  Similarity=-0.029  Sum_probs=81.1

Q ss_pred             HHhcCChHHHHHHHHHHHHcC-------CCCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhc--------CCc-hhhHHH
Q 039362          205 CAHLGALDQGRMMLRYMIDKG-------LSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKH--------QSD-VLIWNA  268 (440)
Q Consensus       205 ~~~~~~~~~a~~~~~~~~~~~-------~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--------~~~-~~~~~~  268 (440)
                      +...|++++|..++++.++..       .+....+++.|..+|...|++++|..++++....        .|+ ..+++.
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            456788888888887765431       1123456777888888888888888888776533        232 346777


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHH-----cC-CCccH-hhHHHHHHHHHcCCChHHHHHHHHHHhhc
Q 039362          269 MIGGLAMHGFVKESLELFTEMQI-----VG-ITPDE-ITFLGLLSACAHGGLVMEAWYFFKSLGKR  327 (440)
Q Consensus       269 l~~~~~~~~~~~~a~~~~~~m~~-----~~-~~p~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  327 (440)
                      |...|...|++++|+.++++..+     .| -.|+. .+...+..++...+.+++|+.+|.++.+.
T Consensus       399 La~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~~  464 (490)
T 3n71_A          399 AGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMREA  464 (490)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            88888888888888888877643     12 11222 23455556666777778888887777653

>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=97.91  E-value=0.00011  Score=54.24  Aligned_cols=112  Identities=7%  Similarity=-0.089  Sum_probs=80.2

Q ss_pred             CChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHh----cCCHHHH
Q 039362          277 GFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSR----AGQVTEA  352 (440)
Q Consensus       277 ~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a  352 (440)
                      +++++|++.|++..+.| .|+..    +...|...+..++|...|++..+.|   +......|...|..    .+++++|
T Consensus         9 ~d~~~A~~~~~~aa~~g-~~~a~----lg~~y~~g~~~~~A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A   80 (138)
T 1klx_A            9 KDLKKAIQYYVKACELN-EMFGC----LSLVSNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKA   80 (138)
T ss_dssp             HHHHHHHHHHHHHHHTT-CTTHH----HHHHTCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHH
T ss_pred             cCHHHHHHHHHHHHcCC-CHhhh----HHHHHHcCCCHHHHHHHHHHHHcCC---CHHHHHHHHHHHHcCCCCCccHHHH
Confidence            45677888888877776 33333    5556666677777888888887754   55666677777777    7788888


Q ss_pred             HHHHhcCCCCccHhHHHHHHHHHHh----cCChhHHHHHHHHHHhcCC
Q 039362          353 YEFICQMPLEPTASMLGSLLTGCMN----HGKLDLAEIVGKKLVELQP  396 (440)
Q Consensus       353 ~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~~  396 (440)
                      .++|++.-...++.....|...|..    .+++++|...|+++.+.+.
T Consensus        81 ~~~~~~Aa~~g~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~  128 (138)
T 1klx_A           81 AQYYSKACGLNDQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGS  128 (138)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHcCCCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCCC
Confidence            8888877222456666777777777    7888889988888888764

>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=97.90  E-value=5.5e-05  Score=56.30  Aligned_cols=92  Identities=9%  Similarity=-0.044  Sum_probs=50.2

Q ss_pred             cCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCh----------HHHHHHHHHHHHcCCCCchhhHHHHHHHHHh
Q 039362          173 CGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGAL----------DQGRMMLRYMIDKGLSLTLPLQTSLIDMYAK  242 (440)
Q Consensus       173 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~----------~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  242 (440)
                      .+.+++|.+.++...+.. +.+...+..+..++...+++          ++|+..|++.++.+ |.+..+|..+..+|..
T Consensus        15 ~~~feeA~~~~~~Ai~l~-P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ld-P~~~~A~~~LG~ay~~   92 (158)
T 1zu2_A           15 ILLFEQIRQDAENTYKSN-PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLID-PKKDEAVWCIGNAYTS   92 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HhHHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhC-cCcHHHHHHHHHHHHH
Confidence            344566666666665553 33555555555555555443          36666666666554 4455555556666655


Q ss_pred             cC-----------CHHHHHHHHhhhhhcCCchhhH
Q 039362          243 CG-----------AIKEALIVFHGVEKHQSDVLIW  266 (440)
Q Consensus       243 ~g-----------~~~~A~~~~~~~~~~~~~~~~~  266 (440)
                      .|           ++++|+..|++..+..|+...|
T Consensus        93 lg~l~P~~~~a~g~~~eA~~~~~kAl~l~P~~~~y  127 (158)
T 1zu2_A           93 FAFLTPDETEAKHNFDLATQFFQQAVDEQPDNTHY  127 (158)
T ss_dssp             HHHHCCCHHHHHHHHHHHHHHHHHHHHHCTTCHHH
T ss_pred             hcccCcchhhhhccHHHHHHHHHHHHHhCCCCHHH
Confidence            43           5555555555555555554433

>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=97.86  E-value=4.8e-05  Score=67.90  Aligned_cols=83  Identities=11%  Similarity=0.064  Sum_probs=62.7

Q ss_pred             hcCCHHHHHHHHhcC---------CCCccH-hHHHHHHHHHHhcCChhHHHHHHHHHHh-----cCCCCCc---hHHHHH
Q 039362          345 RAGQVTEAYEFICQM---------PLEPTA-SMLGSLLTGCMNHGKLDLAEIVGKKLVE-----LQPDHDG---RYVGLS  406 (440)
Q Consensus       345 ~~~~~~~a~~~~~~~---------~~~p~~-~~~~~l~~~~~~~g~~~~a~~~~~~~~~-----~~~~~~~---~~~~l~  406 (440)
                      ..|++++|..++++.         ...|+. .+++.++.+|...|++++|+.+++++++     .+|.+|.   .++.++
T Consensus       310 ~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa  389 (433)
T 3qww_A          310 HYKSPSELLEICELSQEKMSSVFEDSNVYMLHMMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSLNVASMWLKLG  389 (433)
T ss_dssp             TTSCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHH
T ss_pred             hccCHHHHHHHHHHHHHHhhCccChhchHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHH
Confidence            346677777766654         233443 6788888889899999999999988876     3566665   577888


Q ss_pred             HHHHhccChHHHHHHHHHHHh
Q 039362          407 NVYAIFKRWDEARTTREAMET  427 (440)
Q Consensus       407 ~~~~~~g~~~~A~~~~~~~~~  427 (440)
                      .+|..+|++++|..++++.++
T Consensus       390 ~~~~~qg~~~eA~~~~~~Al~  410 (433)
T 3qww_A          390 RLYMGLENKAAGEKALKKAIA  410 (433)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHhccCHHHHHHHHHHHHH
Confidence            899999999999999888765

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=97.86  E-value=0.00028  Score=47.36  Aligned_cols=62  Identities=21%  Similarity=0.345  Sum_probs=29.2

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 039362          162 SWSALIDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDK  224 (440)
Q Consensus       162 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  224 (440)
                      .+..+...+...|++++|...+++..... +.+...+..+..++...|++++|...+++..+.
T Consensus        11 ~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~   72 (91)
T 1na3_A           11 AWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALEL   72 (91)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhc
Confidence            34444445555555555555555544432 223334444444444455555555555544443

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=97.84  E-value=0.00025  Score=50.29  Aligned_cols=78  Identities=15%  Similarity=-0.022  Sum_probs=41.7

Q ss_pred             HHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHhhhhh
Q 039362          179 ALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEK  258 (440)
Q Consensus       179 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  258 (440)
                      |+..|++..+.. +.+...+..+..++...|++++|...+++..+.. +.+...+..+..+|...|++++|...|++...
T Consensus         4 a~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~   81 (115)
T 2kat_A            4 ITERLEAMLAQG-TDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFD-PTYSVAWKWLGKTLQGQGDRAGARQAWESGLA   81 (115)
T ss_dssp             HHHHHHHHHTTT-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhC-CCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            344455544432 2344455555555555566666666666555544 34445555555556666666666665555543

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=97.83  E-value=1.1e-06  Score=76.65  Aligned_cols=238  Identities=11%  Similarity=0.125  Sum_probs=156.3

Q ss_pred             hHHHHHHHHHHHccCChhhHHHHHHHHHHcCCCCCcchHHHHHHHhhchhcHHHHHHHHHHHHHcCCCCcHHHHHHHHHH
Q 039362           28 IFYWNTVIRGYSKSKNPNKSISLFVKMLRAGVSPDHLTYPFLAKASGRLAKRELAVAVHAQIAKTGYESDLFISNSLIHM  107 (440)
Q Consensus        28 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  107 (440)
                      +..|..|..+....+...+|++.|=+      .-|+..|..++.++.+.|.+++-.+.+.-.++..-  ++.+=+.|+-+
T Consensus        54 p~VWs~LgkAqL~~~~v~eAIdsyIk------A~Dps~y~eVi~~A~~~~~~edLv~yL~MaRk~~k--e~~IDteLi~a  125 (624)
T 3lvg_A           54 PAVWSQLAKAQLQKGMVKEAIDSYIK------ADDPSSYMEVVQAANTSGNWEELVKYLQMARKKAR--ESYVETELIFA  125 (624)
T ss_dssp             CCCSSSHHHHTTTSSSCTTTTTSSCC------CSCCCSSSHHHHHTTTSSCCTTHHHHHHTTSTTCC--STTTTHHHHHH
T ss_pred             ccHHHHHHHHHHccCchHHHHHHHHh------CCChHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhc--ccccHHHHHHH
Confidence            35688899999999999988886522      23677789999999999999999998877666532  44455688999


Q ss_pred             HHhcCCHHHHHHHhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHhhCCC------------------------CchhhH
Q 039362          108 YGSCGDIVYAREVFDGMPTKMSVSWNSMLDGYAKCGEMNMARQVFELMPE------------------------RNVVSW  163 (440)
Q Consensus       108 ~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~------------------------~~~~~~  163 (440)
                      |++.+++.+-.+++.   .+|.........-|...|.++.|.-+|..+..                        .++.+|
T Consensus       126 yAk~~rL~elEefl~---~~N~A~iq~VGDrcf~e~lYeAAKilys~isN~akLAstLV~L~~yq~AVdaArKAns~ktW  202 (624)
T 3lvg_A          126 LAKTNRLAELEEFIN---GPNNAHIQQVGDRCYDEKMYDAAKLLYNNVSNFGRLASTLVHLGEYQAAVDGARKANSTRTW  202 (624)
T ss_dssp             HHTSCSSSTTTSTTS---CCSSSCTHHHHHHHHHSCCSTTSSTTGGGSCCCTTTSSSSSSCSGGGSSTTTTTTCCSSCSH
T ss_pred             HHhhCcHHHHHHHHc---CCCcccHHHHHHHHHHccCHHHHHHHHHhCccHHHHHHHHHHHHHHHHHHHHHHhcCChhHH
Confidence            999998766444332   35555666777778888888888877776642                        367789


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhc
Q 039362          164 SALIDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKC  243 (440)
Q Consensus       164 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  243 (440)
                      -.+-.+|...+.+.-|.-.--.++-.   |+  ....++..|...|.+++.+.+++.-.... .....+|+.|.-.|++-
T Consensus       203 KeV~~ACvd~~EfrLAqicGLniIvh---ad--eL~elv~~YE~~G~f~ELIsLlEaglglE-rAHmGmFTELaILYsKY  276 (624)
T 3lvg_A          203 KEVCFACVDGKEFRLAQMCGLHIVVH---AD--ELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKF  276 (624)
T ss_dssp             HHHTHHHHHSCTTTTTTHHHHHHHCC---SS--CCSGGGSSSSTTCCCTTSTTTHHHHTTST-TCCHHHHHHHHHHHHSS
T ss_pred             HHHHHHHhCchHHHHHHHhcchhccc---HH--HHHHHHHHHHhCCCHHHHHHHHHHHhCCC-chhHHHHHHHHHHHHhc
Confidence            99888998888887775554444321   11  12234555666777777777776665332 45566666666666654


Q ss_pred             CCHHHHHHHHhhhhhc--CC-------chhhHHHHHHHHHhcCChHHHH
Q 039362          244 GAIKEALIVFHGVEKH--QS-------DVLIWNAMIGGLAMHGFVKESL  283 (440)
Q Consensus       244 g~~~~A~~~~~~~~~~--~~-------~~~~~~~l~~~~~~~~~~~~a~  283 (440)
                       ++++.++.++.....  -|       ....|..++-.|.+-.+++.|.
T Consensus       277 -~PeKlmEHlklf~sriNipKviracE~ahLW~ElvfLY~~ydE~DnA~  324 (624)
T 3lvg_A          277 -KPQKMREHLELFWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAI  324 (624)
T ss_dssp             -CTTHHHHHHTTSSSSSCCTTTHHHHTTTTCHHHHHHHHHHHTCHHHHH
T ss_pred             -CHHHHHHHHHHHHHhccHHHHHHHHHHHhhHHHHHHHHhcchhHHHHH
Confidence             344444444332211  11       3345666666666666666554

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=97.77  E-value=5.6e-05  Score=52.01  Aligned_cols=80  Identities=15%  Similarity=0.094  Sum_probs=60.1

Q ss_pred             HHHHHHhcCCHHHHHHHHhcC-CCCc-cHh-HHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCCchHHHHHHHHHhccCh
Q 039362          339 MVDALSRAGQVTEAYEFICQM-PLEP-TAS-MLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKRW  415 (440)
Q Consensus       339 l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~-~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  415 (440)
                      ....+...|++++|.+.+++. ...| +.. .+..+..++...|++++|+..|+++++.+|.++..+..        +.+
T Consensus         6 ~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~--------~~~   77 (99)
T 2kc7_A            6 TIKELINQGDIENALQALEEFLQTEPVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIELNPDSPALQAR--------KMV   77 (99)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHCSSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTHHHHH--------HHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcHHHHHH--------HHH
Confidence            456677888888888888887 4445 446 77888888899999999999999999999988766532        455


Q ss_pred             HHHHHHHHHHH
Q 039362          416 DEARTTREAME  426 (440)
Q Consensus       416 ~~A~~~~~~~~  426 (440)
                      .++...+++..
T Consensus        78 ~~a~~~~~~~~   88 (99)
T 2kc7_A           78 MDILNFYNKDM   88 (99)
T ss_dssp             HHHHHHHCCTT
T ss_pred             HHHHHHHHHHh
Confidence            66666665443

>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=97.72  E-value=0.00014  Score=64.98  Aligned_cols=85  Identities=13%  Similarity=0.152  Sum_probs=49.8

Q ss_pred             HHhcCCHHHHHHHHhcC---------CCCcc-HhHHHHHHHHHHhcCChhHHHHHHHHHHh-----cCCCCCc---hHHH
Q 039362          343 LSRAGQVTEAYEFICQM---------PLEPT-ASMLGSLLTGCMNHGKLDLAEIVGKKLVE-----LQPDHDG---RYVG  404 (440)
Q Consensus       343 ~~~~~~~~~a~~~~~~~---------~~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~-----~~~~~~~---~~~~  404 (440)
                      +.+.|++++|++++++.         ...|+ ..+++.++.+|...|++++|+.+++++++     .+|.+|.   .++.
T Consensus       297 ~~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~l~n  376 (429)
T 3qwp_A          297 LKAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRGVQVMK  376 (429)
T ss_dssp             HHHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHH
T ss_pred             HHhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHHHHHHH
Confidence            44555666665555443         11222 24566666666667777777777766664     2344443   3566


Q ss_pred             HHHHHHhccChHHHHHHHHHHHh
Q 039362          405 LSNVYAIFKRWDEARTTREAMET  427 (440)
Q Consensus       405 l~~~~~~~g~~~~A~~~~~~~~~  427 (440)
                      ++..|...|++++|..++++..+
T Consensus       377 La~~~~~~g~~~eA~~~~~~Al~  399 (429)
T 3qwp_A          377 VGKLQLHQGMFPQAMKNLRLAFD  399 (429)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCCHHHHHHHHHHHHH
Confidence            66677777777777777666654

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=97.68  E-value=0.00036  Score=48.05  Aligned_cols=60  Identities=7%  Similarity=0.038  Sum_probs=26.6

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHhhhh
Q 039362          197 TLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVE  257 (440)
Q Consensus       197 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  257 (440)
                      .+..+..++...|++++|...|+++.+.. +.+...+..+..+|...|++++|...|++..
T Consensus         9 ~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al   68 (100)
T 3ma5_A            9 TRYALAQEHLKHDNASRALALFEELVETD-PDYVGTYYHLGKLYERLDRTDDAIDTYAQGI   68 (100)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            33344444444444444444444444443 3333344444444444444444444444433

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=97.65  E-value=0.00013  Score=50.07  Aligned_cols=61  Identities=15%  Similarity=0.264  Sum_probs=55.8

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHhcCCCCCc-hHHHHHHHHHhccChHHHHHHHHHHHhcCC
Q 039362          370 SLLTGCMNHGKLDLAEIVGKKLVELQPDHDG-RYVGLSNVYAIFKRWDEARTTREAMETRGV  430 (440)
Q Consensus       370 ~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~-~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  430 (440)
                      ..+..+...|++++|+..++++++.+|.++. .+..++.+|...|++++|.+.+++.++...
T Consensus         5 ~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p   66 (99)
T 2kc7_A            5 KTIKELINQGDIENALQALEEFLQTEPVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIELNP   66 (99)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHCSSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC
Confidence            3456678899999999999999999999999 999999999999999999999999988754

>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=97.57  E-value=0.00032  Score=62.70  Aligned_cols=99  Identities=10%  Similarity=-0.012  Sum_probs=77.3

Q ss_pred             HHHHHcCCChHHHHHHHHHHhhc---CCCCC----cchHHHHHHHHHhcCCHHHHHHHHhcC---------CCCccH-hH
Q 039362          305 LSACAHGGLVMEAWYFFKSLGKR---GMVPK----SEHYACMVDALSRAGQVTEAYEFICQM---------PLEPTA-SM  367 (440)
Q Consensus       305 ~~~~~~~~~~~~a~~~~~~~~~~---~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~---------~~~p~~-~~  367 (440)
                      +..+...|++++|+.++++..+.   -+.|+    ..+++.++.+|...|++++|+.++++.         ...|+. .+
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            44556778999999999988764   12232    345788899999999999999998876         345555 66


Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHh-----cCCCCCchHH
Q 039362          368 LGSLLTGCMNHGKLDLAEIVGKKLVE-----LQPDHDGRYV  403 (440)
Q Consensus       368 ~~~l~~~~~~~g~~~~a~~~~~~~~~-----~~~~~~~~~~  403 (440)
                      ++.|...|...|++++|+.+++++++     .+|++|.+-.
T Consensus       374 l~nLa~~~~~~g~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~  414 (429)
T 3qwp_A          374 VMKVGKLQLHQGMFPQAMKNLRLAFDIMRVTHGREHSLIED  414 (429)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHH
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhcCCCChHHHH
Confidence            88999999999999999999999987     4788775543

>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=97.57  E-value=0.00022  Score=63.70  Aligned_cols=93  Identities=13%  Similarity=-0.083  Sum_probs=71.3

Q ss_pred             cCCChHHHHHHHHHHhhc---CCCCC----cchHHHHHHHHHhcCCHHHHHHHHhcC---------CCCccH-hHHHHHH
Q 039362          310 HGGLVMEAWYFFKSLGKR---GMVPK----SEHYACMVDALSRAGQVTEAYEFICQM---------PLEPTA-SMLGSLL  372 (440)
Q Consensus       310 ~~~~~~~a~~~~~~~~~~---~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~---------~~~p~~-~~~~~l~  372 (440)
                      ..|++++|+.++++..+.   -+.|+    ..+++.|..+|...|++++|..++++.         ...|+. .+++.|.
T Consensus       310 ~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa  389 (433)
T 3qww_A          310 HYKSPSELLEICELSQEKMSSVFEDSNVYMLHMMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSLNVASMWLKLG  389 (433)
T ss_dssp             TTSCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHH
T ss_pred             hccCHHHHHHHHHHHHHHhhCccChhchHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHH
Confidence            457888888888877653   12232    345788889999999999999888876         245655 5689999


Q ss_pred             HHHHhcCChhHHHHHHHHHHh-----cCCCCCchH
Q 039362          373 TGCMNHGKLDLAEIVGKKLVE-----LQPDHDGRY  402 (440)
Q Consensus       373 ~~~~~~g~~~~a~~~~~~~~~-----~~~~~~~~~  402 (440)
                      ..|...|++++|+.+++++++     .+|++|.+-
T Consensus       390 ~~~~~qg~~~eA~~~~~~Al~i~~~~lG~~Hp~~~  424 (433)
T 3qww_A          390 RLYMGLENKAAGEKALKKAIAIMEVAHGKDHPYIS  424 (433)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHH
T ss_pred             HHHHhccCHHHHHHHHHHHHHHHHHHcCCCChHHH
Confidence            999999999999999999987     467776443

>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=97.42  E-value=0.00052  Score=56.30  Aligned_cols=87  Identities=11%  Similarity=0.070  Sum_probs=56.6

Q ss_pred             HHHHHHHhcC-CCCcc---HhHHHHHHHHHHh-----cCChhHHHHHHHHHHhcCCCC-CchHHHHHHHHHhc-cChHHH
Q 039362          350 TEAYEFICQM-PLEPT---ASMLGSLLTGCMN-----HGKLDLAEIVGKKLVELQPDH-DGRYVGLSNVYAIF-KRWDEA  418 (440)
Q Consensus       350 ~~a~~~~~~~-~~~p~---~~~~~~l~~~~~~-----~g~~~~a~~~~~~~~~~~~~~-~~~~~~l~~~~~~~-g~~~~A  418 (440)
                      ..|...+++. .+.|+   ...|..+...|..     -|+.++|.+.|+++++++|.. ..++..++..++.. |+.++|
T Consensus       180 ~~A~a~lerAleLDP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd~~~a  259 (301)
T 3u64_A          180 HAAVMMLERACDLWPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNNRAGF  259 (301)
T ss_dssp             HHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTCHHHH
T ss_pred             HHHHHHHHHHHHhCCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCCHHHH
Confidence            4455555554 44554   3456666666666     377777777777777777754 66777777777763 777777


Q ss_pred             HHHHHHHHhcCCccCCCC
Q 039362          419 RTTREAMETRGVKKYPGW  436 (440)
Q Consensus       419 ~~~~~~~~~~~~~~~~~~  436 (440)
                      .+.+++.+.......|++
T Consensus       260 ~~~L~kAL~a~p~~~P~~  277 (301)
T 3u64_A          260 DEALDRALAIDPESVPHN  277 (301)
T ss_dssp             HHHHHHHHHCCGGGCSSC
T ss_pred             HHHHHHHHcCCCCCCCCh
Confidence            777777777665544553

>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=97.41  E-value=0.0034  Score=53.87  Aligned_cols=64  Identities=13%  Similarity=0.001  Sum_probs=35.0

Q ss_pred             chhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHhhc
Q 039362          262 DVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKR  327 (440)
Q Consensus       262 ~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  327 (440)
                      +...+..+...+...|++++|...++++...+  |+...|..+...+.-.|++++|.+.|+++...
T Consensus       276 ~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln--~s~~a~~llG~~~~~~G~~~eA~e~~~~AlrL  339 (372)
T 3ly7_A          276 LSIIYQIKAVSALVKGKTDESYQAINTGIDLE--MSWLNYVLLGKVYEMKGMNREAADAYLTAFNL  339 (372)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC--CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc
Confidence            44455555444444566666666666655553  45444555555555556666666666555553

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=97.38  E-value=0.013  Score=57.53  Aligned_cols=100  Identities=16%  Similarity=0.122  Sum_probs=46.7

Q ss_pred             HhcCCHHHHHHHHhhhhhcCCchhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHH
Q 039362          241 AKCGAIKEALIVFHGVEKHQSDVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYF  320 (440)
Q Consensus       241 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~  320 (440)
                      ...|+++.|.++.+.+.    +...|..+...+.+.++++.|++.|.++..         |..+...+...|+.+...++
T Consensus       663 l~~~~~~~A~~~~~~~~----~~~~W~~la~~al~~~~~~~A~~~y~~~~d---------~~~l~~l~~~~~~~~~~~~~  729 (814)
T 3mkq_A          663 LKVGQLTLARDLLTDES----AEMKWRALGDASLQRFNFKLAIEAFTNAHD---------LESLFLLHSSFNNKEGLVTL  729 (814)
T ss_dssp             HHHTCHHHHHHHHTTCC----CHHHHHHHHHHHHHTTCHHHHHHHHHHHTC---------HHHHHHHHHHTTCHHHHHHH
T ss_pred             hhcCCHHHHHHHHHhhC----cHhHHHHHHHHHHHcCCHHHHHHHHHHccC---------hhhhHHHHHHcCCHHHHHHH
Confidence            34455555555544332    344555666666666666666666655431         22233333334444444444


Q ss_pred             HHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcC
Q 039362          321 FKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQM  359 (440)
Q Consensus       321 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  359 (440)
                      -+.....|      -++....+|.+.|++++|.+++.++
T Consensus       730 ~~~a~~~~------~~~~A~~~~~~~g~~~~a~~~~~~~  762 (814)
T 3mkq_A          730 AKDAETTG------KFNLAFNAYWIAGDIQGAKDLLIKS  762 (814)
T ss_dssp             HHHHHHTT------CHHHHHHHHHHHTCHHHHHHHHHHT
T ss_pred             HHHHHHcC------chHHHHHHHHHcCCHHHHHHHHHHc
Confidence            33333322      1233333444555555555555444

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=97.37  E-value=0.0037  Score=44.15  Aligned_cols=141  Identities=12%  Similarity=0.123  Sum_probs=97.0

Q ss_pred             HHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHH
Q 039362          273 LAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEA  352 (440)
Q Consensus       273 ~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  352 (440)
                      +.-.|..++..++..+....   .+..-++.++--....-+=+-..+.++.+-+.   .|.          ..+|+....
T Consensus        17 ~ildG~v~qGveii~k~~~s---sni~E~NW~ICNiiD~a~C~y~v~vLd~IGki---FDi----------s~C~NlKrV   80 (172)
T 1wy6_A           17 FLLDGYIDEGVKIVLEITKS---STKSEYNWFICNLLESIDCRYMFQVLDKIGSY---FDL----------DKCQNLKSV   80 (172)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH---SCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGG---SCG----------GGCSCTHHH
T ss_pred             HHHhhhHHHHHHHHHHHcCC---CCccccceeeeecchhhchhHHHHHHHHHhhh---cCc----------HhhhcHHHH
Confidence            34568888888888887753   34455666665555445555555555554432   121          234444444


Q ss_pred             HHHHhcCCCCccHhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCCchHHHHHHHHHhccChHHHHHHHHHHHhcCCc
Q 039362          353 YEFICQMPLEPTASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEARTTREAMETRGVK  431 (440)
Q Consensus       353 ~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  431 (440)
                      ...+-.++  .+....+..+..+..+|+-++-.+++..+....+++|..+..++.+|.+.|+..+|.+++.+.-+.|++
T Consensus        81 i~C~~~~n--~~se~vd~ALd~lv~~~KkDqLdki~~~~l~n~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~kG~k  157 (172)
T 1wy6_A           81 VECGVINN--TLNEHVNKALDILVIQGKRDKLEEIGREILKNNEVSASILVAIANALRRVGDERDATTLLIEACKKGEK  157 (172)
T ss_dssp             HHHHHHTT--CCCHHHHHHHHHHHHTTCHHHHHHHHHHHC--CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHhc--chHHHHHHHHHHHHHhccHhHHHHHHHHHhccCCCChHHHHHHHHHHHHhcchhhHHHHHHHHHHhhhH
Confidence            44444443  244556667788889999999999999987777888889999999999999999999999999998874

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=97.27  E-value=0.09  Score=51.52  Aligned_cols=151  Identities=15%  Similarity=0.119  Sum_probs=89.0

Q ss_pred             hchhcHHHHHH-HHHHHHHcCCCCcHHHHHHHHHHHHhcCCHHHHHHHhhCCCCCchhhHHHHHHHHHhcCChHHHHHHH
Q 039362           74 GRLAKRELAVA-VHAQIAKTGYESDLFISNSLIHMYGSCGDIVYAREVFDGMPTKMSVSWNSMLDGYAKCGEMNMARQVF  152 (440)
Q Consensus        74 ~~~~~~~~a~~-~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  152 (440)
                      ...+++++|.+ ++..     + ++......++..+.+.|..+.|.++.+.-        ..-.......|++++|.++.
T Consensus       610 ~~~~~~~~a~~~~l~~-----i-~~~~~~~~~~~~l~~~~~~~~a~~~~~~~--------~~~f~~~l~~~~~~~A~~~~  675 (814)
T 3mkq_A          610 TLRGEIEEAIENVLPN-----V-EGKDSLTKIARFLEGQEYYEEALNISPDQ--------DQKFELALKVGQLTLARDLL  675 (814)
T ss_dssp             HHTTCHHHHHHHTGGG-----C-CCHHHHHHHHHHHHHTTCHHHHHHHCCCH--------HHHHHHHHHHTCHHHHHHHH
T ss_pred             HHhCCHHHHHHHHHhc-----C-CchHHHHHHHHHHHhCCChHHheecCCCc--------chheehhhhcCCHHHHHHHH
Confidence            34566666655 3311     1 11222366667777778888877766421        11133445678888888887


Q ss_pred             hhCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhh
Q 039362          153 ELMPERNVVSWSALIDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPL  232 (440)
Q Consensus       153 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  232 (440)
                      +.+.  +...|..+...+.+.++++.|.+.|.++.+         |..+...+...|+.+....+.+.....|      .
T Consensus       676 ~~~~--~~~~W~~la~~al~~~~~~~A~~~y~~~~d---------~~~l~~l~~~~~~~~~~~~~~~~a~~~~------~  738 (814)
T 3mkq_A          676 TDES--AEMKWRALGDASLQRFNFKLAIEAFTNAHD---------LESLFLLHSSFNNKEGLVTLAKDAETTG------K  738 (814)
T ss_dssp             TTCC--CHHHHHHHHHHHHHTTCHHHHHHHHHHHTC---------HHHHHHHHHHTTCHHHHHHHHHHHHHTT------C
T ss_pred             HhhC--cHhHHHHHHHHHHHcCCHHHHHHHHHHccC---------hhhhHHHHHHcCCHHHHHHHHHHHHHcC------c
Confidence            6663  567788888888888888888888887642         2234444455666666555555554443      1


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHhh
Q 039362          233 QTSLIDMYAKCGAIKEALIVFHG  255 (440)
Q Consensus       233 ~~~l~~~~~~~g~~~~A~~~~~~  255 (440)
                      ++....+|.+.|++++|++++.+
T Consensus       739 ~~~A~~~~~~~g~~~~a~~~~~~  761 (814)
T 3mkq_A          739 FNLAFNAYWIAGDIQGAKDLLIK  761 (814)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             hHHHHHHHHHcCCHHHHHHHHHH
Confidence            23333445556666666555543

>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=97.26  E-value=0.054  Score=46.53  Aligned_cols=143  Identities=9%  Similarity=-0.007  Sum_probs=96.5

Q ss_pred             CchhhHHHHHHHH--HhcC---CHHHHHHHHHHHHhcCCCCC-HHHHHHHHHHHHh---cC--ChHHHH---HHHHHHHH
Q 039362          158 RNVVSWSALIDGY--VKCG---DYKEALVIFEEMRDVGSKAN-EVTLVSVLCACAH---LG--ALDQGR---MMLRYMID  223 (440)
Q Consensus       158 ~~~~~~~~l~~~~--~~~~---~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~---~~--~~~~a~---~~~~~~~~  223 (440)
                      .+...|...+++.  ...+   ...+|..+|++..+.  .|+ ...+..+..++..   .+  ......   ..+.....
T Consensus       192 ~~~~Aydl~Lra~~~l~~~~~~~~~~A~~l~e~Al~l--DP~~a~A~A~la~a~~~~~~~~~~~~~~~~~l~~a~~a~~a  269 (372)
T 3ly7_A          192 HRGALLTNFYQAHDYLLHGDDKSLNRASELLGEIVQS--SPEFTYARAEKALVDIVRHSQHPLDEKQLAALNTEIDNIVT  269 (372)
T ss_dssp             SSGGGHHHHHHHHHHHHHCSHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHT
T ss_pred             CCHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHhccCCCchhhHHHHHHHHHHHHh
Confidence            4667777766554  3333   357899999999887  454 3444433333321   11  111111   12222111


Q ss_pred             -cCCCCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCCchhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHH
Q 039362          224 -KGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQSDVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFL  302 (440)
Q Consensus       224 -~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~  302 (440)
                       ...+.++.++..+...+...|++++|...++++....|+...|..+...+.-.|++++|.+.+++....  .|...||.
T Consensus       270 ~~~~~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln~s~~a~~llG~~~~~~G~~~eA~e~~~~AlrL--~P~~~t~~  347 (372)
T 3ly7_A          270 LPELNNLSIIYQIKAVSALVKGKTDESYQAINTGIDLEMSWLNYVLLGKVYEMKGMNREAADAYLTAFNL--RPGANTLY  347 (372)
T ss_dssp             CGGGTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--SCSHHHHH
T ss_pred             cccCCcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCcChHH
Confidence             122667788888888888889999999999999988888878888888999999999999999998876  67776765


Q ss_pred             HH
Q 039362          303 GL  304 (440)
Q Consensus       303 ~l  304 (440)
                      ..
T Consensus       348 ~~  349 (372)
T 3ly7_A          348 WI  349 (372)
T ss_dssp             HH
T ss_pred             HH
Confidence            43

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=97.20  E-value=0.00012  Score=64.20  Aligned_cols=225  Identities=11%  Similarity=0.080  Sum_probs=151.8

Q ss_pred             CChhhHHHHhhhcCCCChHHHHHHHHHHHccCChhhHHHHHHHHHHcCCCCCcchHHHHHHHhhchhcHHHHHHHHHHHH
Q 039362           11 GNIDYSCKVLSHLSNPRIFYWNTVIRGYSKSKNPNKSISLFVKMLRAGVSPDHLTYPFLAKASGRLAKRELAVAVHAQIA   90 (440)
Q Consensus        11 g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~   90 (440)
                      |++.+|.+.|=+  ..|+..|..++....+.|+++.-+..+....+..  -++..=+.|+-+|++.++..+..+.+    
T Consensus        68 ~~v~eAIdsyIk--A~Dps~y~eVi~~A~~~~~~edLv~yL~MaRk~~--ke~~IDteLi~ayAk~~rL~elEefl----  139 (624)
T 3lvg_A           68 GMVKEAIDSYIK--ADDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIFALAKTNRLAELEEFI----  139 (624)
T ss_dssp             SSCTTTTTSSCC--CSCCCSSSHHHHHTTTSSCCTTHHHHHHTTSTTC--CSTTTTHHHHHHHHTSCSSSTTTSTT----
T ss_pred             CchHHHHHHHHh--CCChHHHHHHHHHHHhCCCHHHHHHHHHHHHHHh--cccccHHHHHHHHHhhCcHHHHHHHH----
Confidence            455555544432  3566778889999999999999999888666543  34444578899999998876544432    


Q ss_pred             HcCCCCcHHHHHHHHHHHHhcCCHHHHHHHhhCCC------------------------CCchhhHHHHHHHHHhcCChH
Q 039362           91 KTGYESDLFISNSLIHMYGSCGDIVYAREVFDGMP------------------------TKMSVSWNSMLDGYAKCGEMN  146 (440)
Q Consensus        91 ~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~------------------------~~~~~~~~~l~~~~~~~~~~~  146 (440)
                         -.||..-...+.+-|...|.++.|.-+|..+.                        ..++.+|..+-.+|...+++.
T Consensus       140 ---~~~N~A~iq~VGDrcf~e~lYeAAKilys~isN~akLAstLV~L~~yq~AVdaArKAns~ktWKeV~~ACvd~~Efr  216 (624)
T 3lvg_A          140 ---NGPNNAHIQQVGDRCYDEKMYDAAKLLYNNVSNFGRLASTLVHLGEYQAAVDGARKANSTRTWKEVCFACVDGKEFR  216 (624)
T ss_dssp             ---SCCSSSCTHHHHHHHHHSCCSTTSSTTGGGSCCCTTTSSSSSSCSGGGSSTTTTTTCCSSCSHHHHTHHHHHSCTTT
T ss_pred             ---cCCCcccHHHHHHHHHHccCHHHHHHHHHhCccHHHHHHHHHHHHHHHHHHHHHHhcCChhHHHHHHHHHhCchHHH
Confidence               23555556677888888888888888876653                        136778999999999999887


Q ss_pred             HHHHHHhhC-CCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHH-c
Q 039362          147 MARQVFELM-PERNVVSWSALIDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMID-K  224 (440)
Q Consensus       147 ~a~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-~  224 (440)
                      -|.-.--.+ ..++  ....++..|-..|.+++-+.+++...... ....-.|+-|.-.|++- ++++..+.++..-. .
T Consensus       217 LAqicGLniIvhad--eL~elv~~YE~~G~f~ELIsLlEaglglE-rAHmGmFTELaILYsKY-~PeKlmEHlklf~sri  292 (624)
T 3lvg_A          217 LAQMCGLHIVVHAD--ELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKF-KPQKMREHLELFWSRV  292 (624)
T ss_dssp             TTTHHHHHHHCCSS--CCSGGGSSSSTTCCCTTSTTTHHHHTTST-TCCHHHHHHHHHHHHSS-CTTHHHHHHTTSSSSS
T ss_pred             HHHHhcchhcccHH--HHHHHHHHHHhCCCHHHHHHHHHHHhCCC-chhHHHHHHHHHHHHhc-CHHHHHHHHHHHHHhc
Confidence            765443222 2111  12235566788899999999998876432 44566777777777665 45665555544322 2


Q ss_pred             CCCC------chhhHHHHHHHHHhcCCHHHHH
Q 039362          225 GLSL------TLPLQTSLIDMYAKCGAIKEAL  250 (440)
Q Consensus       225 ~~~~------~~~~~~~l~~~~~~~g~~~~A~  250 (440)
                      +++.      ....|..++-.|..-.+++.|.
T Consensus       293 NipKviracE~ahLW~ElvfLY~~ydE~DnA~  324 (624)
T 3lvg_A          293 NIPKVLRAAEQAHLWAELVFLYDKYEEYDNAI  324 (624)
T ss_dssp             CCTTTHHHHTTTTCHHHHHHHHHHHTCHHHHH
T ss_pred             cHHHHHHHHHHHhhHHHHHHHHhcchhHHHHH
Confidence            3222      2456788888888888888774

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=97.15  E-value=0.0092  Score=40.09  Aligned_cols=51  Identities=8%  Similarity=-0.008  Sum_probs=25.2

Q ss_pred             hHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCCc
Q 039362          211 LDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQSD  262 (440)
Q Consensus       211 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  262 (440)
                      .++|..++++.++.. +.+......+...+...|++++|+..|+++.+..|+
T Consensus        25 ~~~A~~~l~~AL~~d-p~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~~p~   75 (93)
T 3bee_A           25 TDEVSLLLEQALQLE-PYNEAALSLIANDHFISFRFQEAIDTWVLLLDSNDP   75 (93)
T ss_dssp             CHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTCCCT
T ss_pred             CHHHHHHHHHHHHHC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC
Confidence            355555555555444 444444444455555555555555555555444443

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=97.11  E-value=0.0012  Score=48.62  Aligned_cols=89  Identities=12%  Similarity=0.082  Sum_probs=67.6

Q ss_pred             CChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcC---CHHHHHHHHhcC-CCC-c--cHhHHHHHHHHHHhcCChhHH
Q 039362          312 GLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAG---QVTEAYEFICQM-PLE-P--TASMLGSLLTGCMNHGKLDLA  384 (440)
Q Consensus       312 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~-~~~-p--~~~~~~~l~~~~~~~g~~~~a  384 (440)
                      +....+.+-|.+....+. ++..+...+..++++.+   ++++++.++++. ... |  +...+..+..++.+.|++++|
T Consensus        12 ~~l~~~~~~y~~e~~~~~-~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~~p~~~rd~lY~LAv~~~kl~~Y~~A   90 (152)
T 1pc2_A           12 EDLLKFEKKFQSEKAAGS-VSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEKA   90 (152)
T ss_dssp             HHHHHHHHHHHHHHHTTC-CCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHTSCHHHH
T ss_pred             HHHHHHHHHHHHHHccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCccchHHHHHHHHHHHHHccCHHHH
Confidence            345666777777766553 67777777888888887   666899888887 333 5  356677788888999999999


Q ss_pred             HHHHHHHHhcCCCCCch
Q 039362          385 EIVGKKLVELQPDHDGR  401 (440)
Q Consensus       385 ~~~~~~~~~~~~~~~~~  401 (440)
                      .++++.+++.+|.+..+
T Consensus        91 ~~y~~~lL~ieP~n~QA  107 (152)
T 1pc2_A           91 LKYVRGLLQTEPQNNQA  107 (152)
T ss_dssp             HHHHHHHHHHCTTCHHH
T ss_pred             HHHHHHHHhcCCCCHHH
Confidence            99999999999988643

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=97.02  E-value=0.0039  Score=43.10  Aligned_cols=69  Identities=23%  Similarity=0.225  Sum_probs=49.3

Q ss_pred             HHHHHHHHhcCCHHHHHHHHhcC-C--------CCccHhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCCchHHHH
Q 039362          337 ACMVDALSRAGQVTEAYEFICQM-P--------LEPTASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGL  405 (440)
Q Consensus       337 ~~l~~~~~~~~~~~~a~~~~~~~-~--------~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l  405 (440)
                      ..+...+.+.|++..|...++.+ .        -.+...++..+..++.+.|+++.|...++++.+..|.++.+...+
T Consensus         9 ~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~l~P~~~~~~~n~   86 (104)
T 2v5f_A            9 FELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELDPEHQRANGNL   86 (104)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHH
T ss_pred             HHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCCCHHHHhhH
Confidence            34555555666666666655554 0        123567788899999999999999999999999999987664444

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=96.94  E-value=0.017  Score=42.42  Aligned_cols=85  Identities=14%  Similarity=0.123  Sum_probs=58.3

Q ss_pred             HHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcC---ChHHHHHHHHHHHHcCCCC--chhhHHHHHHHHHhcCCHHHHH
Q 039362          176 YKEALVIFEEMRDVGSKANEVTLVSVLCACAHLG---ALDQGRMMLRYMIDKGLSL--TLPLQTSLIDMYAKCGAIKEAL  250 (440)
Q Consensus       176 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~~A~  250 (440)
                      ...+.+.|.+....| .++..+...+..++++.+   +.++++.+++.+.+.. .|  +...+-.+.-+|.+.|++++|+
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            345555666655555 466677777777777777   5567888888877765 23  3455556677778888888888


Q ss_pred             HHHhhhhhcCCc
Q 039362          251 IVFHGVEKHQSD  262 (440)
Q Consensus       251 ~~~~~~~~~~~~  262 (440)
                      ++++.+.+..|+
T Consensus        92 ~y~~~lL~ieP~  103 (152)
T 1pc2_A           92 KYVRGLLQTEPQ  103 (152)
T ss_dssp             HHHHHHHHHCTT
T ss_pred             HHHHHHHhcCCC
Confidence            888888777774

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=96.93  E-value=0.045  Score=41.36  Aligned_cols=127  Identities=14%  Similarity=0.095  Sum_probs=75.7

Q ss_pred             HHhcCCHHHHHHHHhhhhhcCCchhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHH
Q 039362          240 YAKCGAIKEALIVFHGVEKHQSDVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWY  319 (440)
Q Consensus       240 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~  319 (440)
                      ....|+++.|.++.+.+.    +...|..+.......|+++-|.+.|.+...         +..+.-.|.-.|+.+....
T Consensus        15 AL~lg~l~~A~e~a~~l~----~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D---------~~~L~~Ly~~tg~~e~L~k   81 (177)
T 3mkq_B           15 ALEYGNLDAALDEAKKLN----DSITWERLIQEALAQGNASLAEMIYQTQHS---------FDKLSFLYLVTGDVNKLSK   81 (177)
T ss_dssp             HHHTTCHHHHHHHHHHHC----CHHHHHHHHHHHHHTTCHHHHHHHHHHTTC---------HHHHHHHHHHHTCHHHHHH
T ss_pred             HHhcCCHHHHHHHHHHhC----CHHHHHHHHHHHHHcCChHHHHHHHHHhCC---------HHHHHHHHHHhCCHHHHHH
Confidence            345677777777765542    456777777777777777777777776442         2333334444566665555


Q ss_pred             HHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcCCCCccHhHHHHHHHHHHhcCChhHHHHHHHHH
Q 039362          320 FFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQMPLEPTASMLGSLLTGCMNHGKLDLAEIVGKKL  391 (440)
Q Consensus       320 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~  391 (440)
                      +-+.....|      -++.....+...|+++++.++|.+.+.-|....+      ....|-.+.|.++.+.+
T Consensus        82 la~iA~~~g------~~n~af~~~l~lGdv~~~i~lL~~~~r~~eA~~~------A~t~g~~~~a~~~~~~~  141 (177)
T 3mkq_B           82 MQNIAQTRE------DFGSMLLNTFYNNSTKERSSIFAEGGSLPLAYAV------AKANGDEAAASAFLEQA  141 (177)
T ss_dssp             HHHHHHHTT------CHHHHHHHHHHHTCHHHHHHHHHHTTCHHHHHHH------HHHTTCHHHHHHHHHHT
T ss_pred             HHHHHHHCc------cHHHHHHHHHHcCCHHHHHHHHHHCCChHHHHHH------HHHcCcHHHHHHHHHHh
Confidence            444444333      2455556667778888888888777644322221      12355566666666654

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=96.80  E-value=0.005  Score=42.53  Aligned_cols=66  Identities=14%  Similarity=-0.103  Sum_probs=55.4

Q ss_pred             cHhHHHHHHHHHHhcCChhHHHHHHHHHHhcC-------CCCCchHHHHHHHHHhccChHHHHHHHHHHHhcC
Q 039362          364 TASMLGSLLTGCMNHGKLDLAEIVGKKLVELQ-------PDHDGRYVGLSNVYAIFKRWDEARTTREAMETRG  429 (440)
Q Consensus       364 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~-------~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  429 (440)
                      +......++..+...|+++.|...++++.+..       +..+.++..++.++.+.|++++|..+++++.+..
T Consensus         4 sa~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~l~   76 (104)
T 2v5f_A            4 TAEDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELD   76 (104)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             CHHHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHhcC
Confidence            44556678899999999999999999998853       2334578999999999999999999999998754

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=96.29  E-value=0.042  Score=38.79  Aligned_cols=88  Identities=15%  Similarity=0.106  Sum_probs=52.5

Q ss_pred             CCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHH---HHHHHHHHHHcCCC-CchhhHHHHHHHHHhcCCHHHH
Q 039362          174 GDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQ---GRMMLRYMIDKGLS-LTLPLQTSLIDMYAKCGAIKEA  249 (440)
Q Consensus       174 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~---a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A  249 (440)
                      .....+.+-|.+....| .|+..+-..+..++.+......   ++.+++.+.+.+.+ ......-.|.-++.+.|++++|
T Consensus        15 ~~l~~~~~~y~~e~~~~-~~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~~p~~~Rd~lY~LAvg~yklg~Y~~A   93 (126)
T 1nzn_A           15 EDLLKFEKKFQSEKAAG-SVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEKA   93 (126)
T ss_dssp             HHHHHHHHHHHHHHHHS-CCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHHhccC-CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHhhhHHHH
Confidence            33445555555555544 3666666666667777665555   66777776665411 1233344556667777777777


Q ss_pred             HHHHhhhhhcCCc
Q 039362          250 LIVFHGVEKHQSD  262 (440)
Q Consensus       250 ~~~~~~~~~~~~~  262 (440)
                      .+.++.+.+..|+
T Consensus        94 ~~~~~~lL~~eP~  106 (126)
T 1nzn_A           94 LKYVRGLLQTEPQ  106 (126)
T ss_dssp             HHHHHHHHHHCTT
T ss_pred             HHHHHHHHHhCCC
Confidence            7777777766663

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=96.25  E-value=0.18  Score=35.78  Aligned_cols=147  Identities=17%  Similarity=0.051  Sum_probs=97.5

Q ss_pred             HHHHHHH--hhchhcHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhcCCHHHHHHHhhCCCCC-chhhHHHHHHHHHhc
Q 039362           66 YPFLAKA--SGRLAKRELAVAVHAQIAKTGYESDLFISNSLIHMYGSCGDIVYAREVFDGMPTK-MSVSWNSMLDGYAKC  142 (440)
Q Consensus        66 ~~~l~~~--~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-~~~~~~~l~~~~~~~  142 (440)
                      ...|+.+  +...|..++..++..+.....   +..-+|-+|--....-+-+...++++.+-+- |.          ..+
T Consensus         8 ~kkLmeAK~~ildG~v~qGveii~k~~~ss---ni~E~NW~ICNiiD~a~C~y~v~vLd~IGkiFDi----------s~C   74 (172)
T 1wy6_A            8 IRKLMDAKKFLLDGYIDEGVKIVLEITKSS---TKSEYNWFICNLLESIDCRYMFQVLDKIGSYFDL----------DKC   74 (172)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS---CHHHHTHHHHHHHHHCCHHHHHHHHHHHGGGSCG----------GGC
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHcCCC---CccccceeeeecchhhchhHHHHHHHHHhhhcCc----------Hhh
Confidence            3444443  344577888888888877653   4455666665555556666666666554331 11          234


Q ss_pred             CChHHHHHHHhhCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHH
Q 039362          143 GEMNMARQVFELMPERNVVSWSALIDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMI  222 (440)
Q Consensus       143 ~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  222 (440)
                      |++......+-.+. .+.......++.+..+|+-++-.+++..+... .+|+......+..+|.+.|+..++.+++.++-
T Consensus        75 ~NlKrVi~C~~~~n-~~se~vd~ALd~lv~~~KkDqLdki~~~~l~n-~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC  152 (172)
T 1wy6_A           75 QNLKSVVECGVINN-TLNEHVNKALDILVIQGKRDKLEEIGREILKN-NEVSASILVAIANALRRVGDERDATTLLIEAC  152 (172)
T ss_dssp             SCTHHHHHHHHHTT-CCCHHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             hcHHHHHHHHHHhc-chHHHHHHHHHHHHHhccHhHHHHHHHHHhcc-CCCChHHHHHHHHHHHHhcchhhHHHHHHHHH
Confidence            44555555544443 34455666778888899999988888886443 37788888888899999999999999999988


Q ss_pred             HcCCC
Q 039362          223 DKGLS  227 (440)
Q Consensus       223 ~~~~~  227 (440)
                      +.|++
T Consensus       153 ~kG~k  157 (172)
T 1wy6_A          153 KKGEK  157 (172)
T ss_dssp             HTTCH
T ss_pred             HhhhH
Confidence            88853

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=96.18  E-value=0.043  Score=38.77  Aligned_cols=86  Identities=13%  Similarity=0.071  Sum_probs=54.0

Q ss_pred             HHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHH---HHHHHhcC-CCC-c--cHhHHHHHHHHHHhcCChhHHHHH
Q 039362          315 MEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTE---AYEFICQM-PLE-P--TASMLGSLLTGCMNHGKLDLAEIV  387 (440)
Q Consensus       315 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~---a~~~~~~~-~~~-p--~~~~~~~l~~~~~~~g~~~~a~~~  387 (440)
                      ..+.+-|.+....|. |+..+-..+..++.+......   ++.++++. ... |  .......+..++.+.|++++|.+.
T Consensus        18 ~~~~~~y~~e~~~~~-~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~~p~~~Rd~lY~LAvg~yklg~Y~~A~~~   96 (126)
T 1nzn_A           18 LKFEKKFQSEKAAGS-VSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEKALKY   96 (126)
T ss_dssp             HHHHHHHHHHHHHSC-CCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHhccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHhhhHHHHHHH
Confidence            334444444444332 455555555566666655444   66666665 222 4  234555677788899999999999


Q ss_pred             HHHHHhcCCCCCch
Q 039362          388 GKKLVELQPDHDGR  401 (440)
Q Consensus       388 ~~~~~~~~~~~~~~  401 (440)
                      ++.+++..|.+..+
T Consensus        97 ~~~lL~~eP~n~QA  110 (126)
T 1nzn_A           97 VRGLLQTEPQNNQA  110 (126)
T ss_dssp             HHHHHHHCTTCHHH
T ss_pred             HHHHHHhCCCCHHH
Confidence            99999999988654

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=96.05  E-value=0.14  Score=48.78  Aligned_cols=59  Identities=20%  Similarity=0.162  Sum_probs=52.3

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHhcCCCCCchHHHHHHHHHhccChHHHHHHHHHHH
Q 039362          368 LGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEARTTREAME  426 (440)
Q Consensus       368 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  426 (440)
                      +..-...|...|+++.|+++.+++...-|.+-.+|..|+.+|...|+++.|+-.++.+.
T Consensus       340 L~~Qa~FLl~K~~~elAL~~Ak~AV~~aPseF~tW~~La~vYi~l~d~e~ALLtLNScP  398 (754)
T 4gns_B          340 LNIQTNFLLNRGDYELALGVSNTSTELALDSFESWYNLARCHIKKEEYEKALFAINSMP  398 (754)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHSC
T ss_pred             HHHHHHHHhccCcHHHHHHHHHHHHhcCchhhHHHHHHHHHHHHhccHHHHHHHHhcCC
Confidence            33445667789999999999999999999999999999999999999999999998874

>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=96.02  E-value=0.019  Score=41.64  Aligned_cols=112  Identities=11%  Similarity=0.000  Sum_probs=72.1

Q ss_pred             CccHhhHHHHHHHHHcCCCh------HHHHHHHHHHhhcCCCCCcch-HHHHHH------HHHhcCCHHHHHHHHhcC-C
Q 039362          295 TPDEITFLGLLSACAHGGLV------MEAWYFFKSLGKRGMVPKSEH-YACMVD------ALSRAGQVTEAYEFICQM-P  360 (440)
Q Consensus       295 ~p~~~~~~~l~~~~~~~~~~------~~a~~~~~~~~~~~~~~~~~~-~~~l~~------~~~~~~~~~~a~~~~~~~-~  360 (440)
                      +-|..+|-..+....+.|+.      ++..++|+++... ++|+... |...+.      .+...++.++|.++|+.+ .
T Consensus        10 p~~yd~W~~yl~llE~~g~p~~d~~l~rlrd~YerAia~-~Pp~k~~~wrrYI~LWIrYA~~~ei~D~d~aR~vy~~a~~   88 (161)
T 4h7y_A           10 ANNPEDWLSLLLKLEKNSVPLSDALLNKLIGRYSQAIEA-LPPDKYGQNESFARIQVRFAELKAIQEPDDARDYFQMARA   88 (161)
T ss_dssp             CCSHHHHHHHHHHHHHHTCSCCHHHHHHHHHHHHHHHHH-SCGGGGTTCHHHHHHHHHHHHHHHHHCGGGCHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHHHHc-CCccccccHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHH
Confidence            44566777777777777888      8888888888774 4554321 222222      123457778888888777 1


Q ss_pred             C-CccHhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCCchHHHHHH
Q 039362          361 L-EPTASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSN  407 (440)
Q Consensus       361 ~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~  407 (440)
                      + +.=..+|......-.++|+.+.|.+++.+++.++|.+...+...+.
T Consensus        89 ~hKkFAKiwi~~AqFEiRqgnl~kARkILg~AiG~~~k~~~~le~a~~  136 (161)
T 4h7y_A           89 NCKKFAFVHISFAQFELSQGNVKKSKQLLQKAVERGAVPLEMLEIALR  136 (161)
T ss_dssp             HCTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBCHHHHHHHHH
T ss_pred             HhHHHHHHHHHHHHHHHHcccHHHHHHHHHHHhccCCCcHHHHHHHHH
Confidence            1 1115666666666677888888888888888888776555544443

>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=96.01  E-value=0.079  Score=43.64  Aligned_cols=82  Identities=10%  Similarity=-0.011  Sum_probs=43.6

Q ss_pred             HHHHHHHhhhhhcCCc---hhhHHHHHHHHHh-----cCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcC-CChHHH
Q 039362          247 KEALIVFHGVEKHQSD---VLIWNAMIGGLAM-----HGFVKESLELFTEMQIVGITPDEITFLGLLSACAHG-GLVMEA  317 (440)
Q Consensus       247 ~~A~~~~~~~~~~~~~---~~~~~~l~~~~~~-----~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~-~~~~~a  317 (440)
                      ..|...++++.+..|+   ...|..+...|.+     -|+.++|.++|++..+.+..-+..++......++.. |+.+.+
T Consensus       180 ~~A~a~lerAleLDP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd~~~a  259 (301)
T 3u64_A          180 HAAVMMLERACDLWPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNNRAGF  259 (301)
T ss_dssp             HHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTCHHHH
T ss_pred             HHHHHHHHHHHHhCCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCCHHHH
Confidence            4455555555555554   3455555555555     266666666666665542111234444455555553 666666


Q ss_pred             HHHHHHHhhcC
Q 039362          318 WYFFKSLGKRG  328 (440)
Q Consensus       318 ~~~~~~~~~~~  328 (440)
                      .+.+++.+...
T Consensus       260 ~~~L~kAL~a~  270 (301)
T 3u64_A          260 DEALDRALAID  270 (301)
T ss_dssp             HHHHHHHHHCC
T ss_pred             HHHHHHHHcCC
Confidence            66666666543

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=96.00  E-value=0.34  Score=36.59  Aligned_cols=127  Identities=16%  Similarity=0.089  Sum_probs=79.9

Q ss_pred             HhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCCchhhHHHHHHHHHhcCChHHHHHH
Q 039362          206 AHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQSDVLIWNAMIGGLAMHGFVKESLEL  285 (440)
Q Consensus       206 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  285 (440)
                      ...|+++.|.++.+.+      .+...|..|.......|+++-|.+.|.+..       -+..+.-.|...|+.+....+
T Consensus        16 L~lg~l~~A~e~a~~l------~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~-------D~~~L~~Ly~~tg~~e~L~kl   82 (177)
T 3mkq_B           16 LEYGNLDAALDEAKKL------NDSITWERLIQEALAQGNASLAEMIYQTQH-------SFDKLSFLYLVTGDVNKLSKM   82 (177)
T ss_dssp             HHTTCHHHHHHHHHHH------CCHHHHHHHHHHHHHTTCHHHHHHHHHHTT-------CHHHHHHHHHHHTCHHHHHHH
T ss_pred             HhcCCHHHHHHHHHHh------CCHHHHHHHHHHHHHcCChHHHHHHHHHhC-------CHHHHHHHHHHhCCHHHHHHH
Confidence            4667888887776654      356678888888888888888888887766       234444455566777666665


Q ss_pred             HHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcCC
Q 039362          286 FTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQMP  360 (440)
Q Consensus       286 ~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  360 (440)
                      -+.....|      -++.....+...|+++++.++|.+.-+   -|      ..+......|..+.|.++.++++
T Consensus        83 a~iA~~~g------~~n~af~~~l~lGdv~~~i~lL~~~~r---~~------eA~~~A~t~g~~~~a~~~~~~~~  142 (177)
T 3mkq_B           83 QNIAQTRE------DFGSMLLNTFYNNSTKERSSIFAEGGS---LP------LAYAVAKANGDEAAASAFLEQAE  142 (177)
T ss_dssp             HHHHHHTT------CHHHHHHHHHHHTCHHHHHHHHHHTTC---HH------HHHHHHHHTTCHHHHHHHHHHTT
T ss_pred             HHHHHHCc------cHHHHHHHHHHcCCHHHHHHHHHHCCC---hH------HHHHHHHHcCcHHHHHHHHHHhC
Confidence            55555444      244445555667888888887754322   11      11112233566777777777764

>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=95.82  E-value=0.09  Score=38.19  Aligned_cols=101  Identities=9%  Similarity=0.065  Sum_probs=65.2

Q ss_pred             CchhhHHHHHHHHHhcCCh------HHHHHHHHHHHHcCCCccHh-h---HHHHHHHH---HcCCChHHHHHHHHHHhhc
Q 039362          261 SDVLIWNAMIGGLAMHGFV------KESLELFTEMQIVGITPDEI-T---FLGLLSAC---AHGGLVMEAWYFFKSLGKR  327 (440)
Q Consensus       261 ~~~~~~~~l~~~~~~~~~~------~~a~~~~~~m~~~~~~p~~~-~---~~~l~~~~---~~~~~~~~a~~~~~~~~~~  327 (440)
                      .|..+|-..+...-+.|++      ++..++|++.... ++|+.. .   |..+.--|   ...++.++|.++|+.+++.
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            3667777777777777888      7888888887764 466532 2   22222111   2347888888888888765


Q ss_pred             CCCCCcchHHHHHHHHHhcCCHHHHHHHHhcC-CCCc
Q 039362          328 GMVPKSEHYACMVDALSRAGQVTEAYEFICQM-PLEP  363 (440)
Q Consensus       328 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p  363 (440)
                      +-+- ...|....+.-.+.|+...|.+++.+. +..|
T Consensus        90 hKkF-AKiwi~~AqFEiRqgnl~kARkILg~AiG~~~  125 (161)
T 4h7y_A           90 CKKF-AFVHISFAQFELSQGNVKKSKQLLQKAVERGA  125 (161)
T ss_dssp             CTTB-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC
T ss_pred             hHHH-HHHHHHHHHHHHHcccHHHHHHHHHHHhccCC
Confidence            2222 555666666667888888888888876 4444

>1qsa_A Protein (soluble lytic transglycosylase SLT70); alpha-superhelix, transferase; HET: GOL; 1.65A {Escherichia coli} SCOP: a.118.5.1 d.2.1.6 PDB: 1qte_A* 1sly_A*

Probab=95.73  E-value=1.3  Score=41.34  Aligned_cols=114  Identities=9%  Similarity=0.002  Sum_probs=71.1

Q ss_pred             CChHHHHHHHHHHHHcCCCccHhhHH----HHHHHHHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHH
Q 039362          277 GFVKESLELFTEMQIVGITPDEITFL----GLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEA  352 (440)
Q Consensus       277 ~~~~~a~~~~~~m~~~~~~p~~~~~~----~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  352 (440)
                      .+.+.|...|....... ..+.....    .+.......+...++...+.......  ++.....-.+....+.|+++.|
T Consensus       228 ~d~~~A~~~~~~~~~~~-~~~~~~~~~~~~~ia~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~e~~~r~Alr~~d~~~a  304 (618)
T 1qsa_A          228 QDAENARLMIPSLAQAQ-QLNEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIMRS--QSTSLIERRVRMALGTGDRRGL  304 (618)
T ss_dssp             HCHHHHHHHHHHHHHHT-TCCHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHHTC--CCHHHHHHHHHHHHHHTCHHHH
T ss_pred             cCHHHHHHHHHhhhhcc-CCCHHHHHHHHHHHHHHHHHcCCChHHHHHHHhccccC--CChHHHHHHHHHHHHCCCHHHH
Confidence            47899999998886544 22332222    22222333443556666666654432  3333344455555678999999


Q ss_pred             HHHHhcCCCCc-cHhHH-HHHHHHHHhcCChhHHHHHHHHHHh
Q 039362          353 YEFICQMPLEP-TASML-GSLLTGCMNHGKLDLAEIVGKKLVE  393 (440)
Q Consensus       353 ~~~~~~~~~~p-~~~~~-~~l~~~~~~~g~~~~a~~~~~~~~~  393 (440)
                      ...|+.+...+ +..-+ .=+..++...|+.++|..+|+++.+
T Consensus       305 ~~~~~~l~~~~~~~~r~~YW~~ra~~~~g~~~~a~~~~~~~a~  347 (618)
T 1qsa_A          305 NTWLARLPMEAKEKDEWRYWQADLLLERGREAEAKEILHQLMQ  347 (618)
T ss_dssp             HHHHHHSCTTGGGSHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHccccccccHhHHHHHHHHHHHcCCHHHHHHHHHHHhc
Confidence            99999995333 22222 2245567788999999999999975

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=95.72  E-value=1.7  Score=42.49  Aligned_cols=255  Identities=13%  Similarity=-0.047  Sum_probs=134.3

Q ss_pred             HHHHHHhcCChHHHHHHHhhCCC----Cch--hhHHHHHHHHHhcCCHHHHHHHHHHHHhcCC-------CCCHHHHHHH
Q 039362          135 MLDGYAKCGEMNMARQVFELMPE----RNV--VSWSALIDGYVKCGDYKEALVIFEEMRDVGS-------KANEVTLVSV  201 (440)
Q Consensus       135 l~~~~~~~~~~~~a~~~~~~~~~----~~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-------~~~~~~~~~l  201 (440)
                      ..-+....|+.++++..+.....    .+.  ..=..+.-+....|..+++..++.......-       .+....-..+
T Consensus       380 aSLGlIh~g~~~~gl~~L~~yL~~~~s~~~~ik~GAllaLGli~ag~~~~~~~lL~~~L~~~~~~~~~~~~~~ir~gAaL  459 (963)
T 4ady_A          380 ASLGVIHKGNLLEGKKVMAPYLPGSRASSRFIKGGSLYGLGLIYAGFGRDTTDYLKNIIVENSGTSGDEDVDVLLHGASL  459 (963)
T ss_dssp             HHHHHHTSSCTTTHHHHHTTTSTTSCCSCHHHHHHHHHHHHHHTTTTTHHHHHHHHHHHHHHSSCCSCHHHHHHHHHHHH
T ss_pred             HHhhhhccCchHHHHHHHHHhccccCCCcHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHcCccccccccccHHHHHHHHH
Confidence            34456778888888888887653    121  1222233345555655667777776654321       0111112223


Q ss_pred             HHHHHhcCC-hHHHHHHHHHHHHcCCCCch--hhHHHHHHHHHhcCCHHHHHHHHhhhhhcCCc-hhhHHHHHHHHHhcC
Q 039362          202 LCACAHLGA-LDQGRMMLRYMIDKGLSLTL--PLQTSLIDMYAKCGAIKEALIVFHGVEKHQSD-VLIWNAMIGGLAMHG  277 (440)
Q Consensus       202 ~~~~~~~~~-~~~a~~~~~~~~~~~~~~~~--~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~l~~~~~~~~  277 (440)
                      .-+..-.|. -+++...+..+.... ....  ..-.++...+.-.|+.+....++..+.+...+ +.-.-.+.-++...|
T Consensus       460 GLGla~~GS~~eev~e~L~~~L~dd-~~~~~~~AalALGli~vGTgn~~ai~~LL~~~~e~~~e~vrR~aalgLGll~~g  538 (963)
T 4ady_A          460 GIGLAAMGSANIEVYEALKEVLYND-SATSGEAAALGMGLCMLGTGKPEAIHDMFTYSQETQHGNITRGLAVGLALINYG  538 (963)
T ss_dssp             HHHHHSTTCCCHHHHHHHHHHHHTC-CHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHCSCHHHHHHHHHHHHHHTTT
T ss_pred             HHHHHhcCCCCHHHHHHHHHHHhcC-CHHHHHHHHHHHhhhhcccCCHHHHHHHHHHHhccCcHHHHHHHHHHHHhhhCC
Confidence            333333342 245555565555432 1111  12234445556677777777777766543332 222233333455678


Q ss_pred             ChHHHHHHHHHHHHcCCCccHhhH--HHHHHHHHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHH
Q 039362          278 FVKESLELFTEMQIVGITPDEITF--LGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEF  355 (440)
Q Consensus       278 ~~~~a~~~~~~m~~~~~~p~~~~~--~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  355 (440)
                      +.+.+..+.+.+.... .|....-  ..+.-+|+..|+......++..+.... ..+......+.-++...|+.+.+.++
T Consensus       539 ~~e~~~~li~~L~~~~-dp~vRygaa~alglAyaGTGn~~aIq~LL~~~~~d~-~d~VRraAViaLGlI~~g~~e~v~rl  616 (963)
T 4ady_A          539 RQELADDLITKMLASD-ESLLRYGGAFTIALAYAGTGNNSAVKRLLHVAVSDS-NDDVRRAAVIALGFVLLRDYTTVPRI  616 (963)
T ss_dssp             CGGGGHHHHHHHHHCS-CHHHHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHCS-CHHHHHHHHHHHHHHTSSSCSSHHHH
T ss_pred             ChHHHHHHHHHHHhCC-CHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHhccCC-cHHHHHHHHHHHHhhccCCHHHHHHH
Confidence            8888888888777532 3333222  233445667788777777888877642 22222233333344456776777777


Q ss_pred             HhcC--CCCccHhHHHHHHHHHHhcCCh-hHHHHHHHHHH
Q 039362          356 ICQM--PLEPTASMLGSLLTGCMNHGKL-DLAEIVGKKLV  392 (440)
Q Consensus       356 ~~~~--~~~p~~~~~~~l~~~~~~~g~~-~~a~~~~~~~~  392 (440)
                      ++.+  ...|....-..+.-+....|.. .+++..+..+.
T Consensus       617 v~~L~~~~d~~VR~gAalALGli~aGn~~~~aid~L~~L~  656 (963)
T 4ady_A          617 VQLLSKSHNAHVRCGTAFALGIACAGKGLQSAIDVLDPLT  656 (963)
T ss_dssp             TTTGGGCSCHHHHHHHHHHHHHHTSSSCCHHHHHHHHHHH
T ss_pred             HHHHHhcCCHHHHHHHHHHHHHhccCCCcHHHHHHHHHHc
Confidence            7655  2344444334444444445443 56677777764

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=95.10  E-value=1.6  Score=39.14  Aligned_cols=90  Identities=13%  Similarity=0.236  Sum_probs=50.2

Q ss_pred             HHHHHHHHhcCCHHHHHHHHhcC-----CCCcc---HhHHHHHHHHHHhcCChhHHHHHHHHHHhc---CCCCC----ch
Q 039362          337 ACMVDALSRAGQVTEAYEFICQM-----PLEPT---ASMLGSLLTGCMNHGKLDLAEIVGKKLVEL---QPDHD----GR  401 (440)
Q Consensus       337 ~~l~~~~~~~~~~~~a~~~~~~~-----~~~p~---~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~----~~  401 (440)
                      ..|...|...|++.+|.+++.++     +..+.   ...+...++.|...+++.+|..+++++...   .+.++    ..
T Consensus       141 ~~La~i~e~~g~~~eA~~iL~~l~~Et~~~~~~~~kve~~l~q~rl~l~~~d~~~a~~~~~ki~~~~~~~~~~~~lk~~~  220 (445)
T 4b4t_P          141 KDLVEIKKEEGKIDEAADILCELQVETYGSMEMSEKIQFILEQMELSILKGDYSQATVLSRKILKKTFKNPKYESLKLEY  220 (445)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSSCCHHHHHHH
T ss_pred             HHHHHHHHHccCHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhcccCCcHHHHHHH
Confidence            34556666667777776666665     21111   234455556666677777777776665421   12222    13


Q ss_pred             HHHHHHHHHhccChHHHHHHHHHHH
Q 039362          402 YVGLSNVYAIFKRWDEARTTREAME  426 (440)
Q Consensus       402 ~~~l~~~~~~~g~~~~A~~~~~~~~  426 (440)
                      +...+..+...++|.+|...|.++.
T Consensus       221 ~~~~~~~~~~e~~y~~a~~~y~e~~  245 (445)
T 4b4t_P          221 YNLLVKISLHKREYLEVAQYLQEIY  245 (445)
T ss_dssp             HHHHHHHHHHHCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            4555666666667766666655553

>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=94.63  E-value=0.1  Score=37.02  Aligned_cols=71  Identities=14%  Similarity=0.155  Sum_probs=42.1

Q ss_pred             CCCcchHHHHHHHHHhcCCH---HHHHHHHhcC-CCCc--cHhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCCc
Q 039362          330 VPKSEHYACMVDALSRAGQV---TEAYEFICQM-PLEP--TASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDG  400 (440)
Q Consensus       330 ~~~~~~~~~l~~~~~~~~~~---~~a~~~~~~~-~~~p--~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~  400 (440)
                      .|+..+--.+..++.+....   .+++.++++. ...|  ....+..+..++.+.|++++|.++.+.+++..|.|..
T Consensus        37 ~vs~qt~F~yAw~Lv~S~~~~d~~~GI~LLe~l~~~~~~~~Rd~LYyLAvg~yklgdY~~Ar~y~d~lL~~eP~N~Q  113 (134)
T 3o48_A           37 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHERNNKQ  113 (134)
T ss_dssp             GSCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTCTTCHH
T ss_pred             CCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcchhHHHHHHHHHHHHHhhhHHHHHHHHHHHHhhCCCCHH
Confidence            34555544455556655543   3456666655 2233  2345556666777777777777777777777777654

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=94.60  E-value=0.41  Score=34.48  Aligned_cols=71  Identities=14%  Similarity=0.155  Sum_probs=42.1

Q ss_pred             CCCcchHHHHHHHHHhcCCH---HHHHHHHhcC-CCCc--cHhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCCc
Q 039362          330 VPKSEHYACMVDALSRAGQV---TEAYEFICQM-PLEP--TASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDG  400 (440)
Q Consensus       330 ~~~~~~~~~l~~~~~~~~~~---~~a~~~~~~~-~~~p--~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~  400 (440)
                      .|+..+--.+..++.+....   .+++.++++. ...|  .......+..++.+.|++++|.++.+.+++..|.|..
T Consensus        36 ~vs~~t~F~YAw~Lv~S~~~~di~~GI~LLe~l~~~~~~~~RdcLYyLAvg~ykl~~Y~~Ar~y~d~lL~~eP~n~Q  112 (144)
T 1y8m_A           36 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHERNNKQ  112 (144)
T ss_dssp             TSCHHHHHHHHHHHHHSSSHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHTCCCCHH
T ss_pred             CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCccchhHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCCCcHH
Confidence            34555544555566655543   3556666655 2223  2344455666677777777777777777777777653

>2ff4_A Probable regulatory protein EMBR; winged-helix, tetratricopeptide repeat, beta-sandwich, trans; HET: DNA TPO; 1.90A {Mycobacterium tuberculosis} SCOP: a.4.6.1 a.118.8.3 b.26.1.2 PDB: 2fez_A*

Probab=94.25  E-value=0.11  Score=45.56  Aligned_cols=59  Identities=14%  Similarity=0.095  Sum_probs=45.2

Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHhcCCCCCchHHHHHHHHHhccChHHHHHHHHHHHh
Q 039362          369 GSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEARTTREAMET  427 (440)
Q Consensus       369 ~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  427 (440)
                      ..++..+...|+++++...++.+...+|-+...+..++.++.+.|+..+|++.|+++.+
T Consensus       175 ~~~~~~~l~~g~~~~a~~~l~~~~~~~P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~  233 (388)
T 2ff4_A          175 TAKAEAEIACGRASAVIAELEALTFEHPYREPLWTQLITAYYLSDRQSDALGAYRRVKT  233 (388)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            44556666778888888888888888888777888888888888888888888777654

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=94.14  E-value=0.26  Score=36.62  Aligned_cols=27  Identities=15%  Similarity=0.225  Sum_probs=22.6

Q ss_pred             chHHHHHHHHHhccChHHHHHHHHHHH
Q 039362          400 GRYVGLSNVYAIFKRWDEARTTREAME  426 (440)
Q Consensus       400 ~~~~~l~~~~~~~g~~~~A~~~~~~~~  426 (440)
                      ..-..++.+|.+.|++++|+.+++.+.
T Consensus       123 Elkykia~C~~~l~~~~~Ai~~Le~Ip  149 (167)
T 3ffl_A          123 EVKYKLAECYTVLKQDKDAIAILDGIP  149 (167)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHTSC
T ss_pred             HHHHHHHHHHHHHCCHHHHHHHHhcCC
Confidence            355678999999999999999998653

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=93.88  E-value=3.4  Score=42.23  Aligned_cols=80  Identities=11%  Similarity=0.076  Sum_probs=47.1

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHhhhhhc-CCc-----hhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHH
Q 039362          231 PLQTSLIDMYAKCGAIKEALIVFHGVEKH-QSD-----VLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGL  304 (440)
Q Consensus       231 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~~~-----~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l  304 (440)
                      .-|..++..+.+.+.++.+.++-....+. .++     ...|..+..++...|++++|...+-.+.....+  ...+..|
T Consensus       900 ~YY~hv~~LFe~~~~~~~vi~fa~lAi~~~~~~~~~~~~~l~~~iFk~~L~l~~ye~Ay~aL~~~pd~~~r--~~cLr~L  977 (1139)
T 4fhn_B          900 CYYLHLSKKLFEESAYIDALEFSLLADASKETDDEDLSIAITHETLKTACAAGKFDAAHVALMVLSTTPLK--KSCLLDF  977 (1139)
T ss_dssp             HHHHHHHHHHHHTSCCHHHHHHHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHCCSGGGGHHHHHHHHSSSC--HHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhccCCChhhHHHHHHHHHHHHHhhCCHHHHHHHHHhCCCHHHH--HHHHHHH
Confidence            44566677777777777776666554433 111     124667777777778888877777666554322  2344555


Q ss_pred             HHHHHcCC
Q 039362          305 LSACAHGG  312 (440)
Q Consensus       305 ~~~~~~~~  312 (440)
                      +...+..|
T Consensus       978 V~~lce~~  985 (1139)
T 4fhn_B          978 VNQLTKQG  985 (1139)
T ss_dssp             HHHHHHHC
T ss_pred             HHHHHhCC
Confidence            55554433

>3o48_A Mitochondria fission 1 protein; tetratricopeptide repeat fold, TPR, scaffold, peroxisome, membrane fission, protein binding; 1.75A {Saccharomyces cerevisiae} PDB: 2pqr_A 2pqn_A 3uux_A

Probab=93.55  E-value=0.94  Score=32.16  Aligned_cols=71  Identities=13%  Similarity=-0.029  Sum_probs=45.4

Q ss_pred             CCCHHHHHHHHHHHHhcCCh---HHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCCc
Q 039362          192 KANEVTLVSVLCACAHLGAL---DQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQSD  262 (440)
Q Consensus       192 ~~~~~~~~~l~~~~~~~~~~---~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  262 (440)
                      .|+..+-.....++.+..+.   ..++.+++.+.+.+........-.|.-++.+.|++++|.++.+.+.+..|+
T Consensus        37 ~vs~qt~F~yAw~Lv~S~~~~d~~~GI~LLe~l~~~~~~~~Rd~LYyLAvg~yklgdY~~Ar~y~d~lL~~eP~  110 (134)
T 3o48_A           37 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHERN  110 (134)
T ss_dssp             GSCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTCTT
T ss_pred             CCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcchhHHHHHHHHHHHHHhhhHHHHHHHHHHHHhhCCC
Confidence            55666655666666666543   456777777776552223444555667777777888887777777766664

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=93.25  E-value=1.2  Score=33.02  Aligned_cols=29  Identities=17%  Similarity=0.367  Sum_probs=16.8

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHhhhhhc
Q 039362          231 PLQTSLIDMYAKCGAIKEALIVFHGVEKH  259 (440)
Q Consensus       231 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  259 (440)
                      ..--.+..+|.+.+++++|+.+++.++..
T Consensus       123 Elkykia~C~~~l~~~~~Ai~~Le~Ip~k  151 (167)
T 3ffl_A          123 EVKYKLAECYTVLKQDKDAIAILDGIPSR  151 (167)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHTSCGG
T ss_pred             HHHHHHHHHHHHHCCHHHHHHHHhcCCch
Confidence            33344566666666666666666665533

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=93.24  E-value=0.69  Score=44.18  Aligned_cols=122  Identities=11%  Similarity=0.023  Sum_probs=72.7

Q ss_pred             HHHHHHhcCC-HHHHHHHHHHHHhcCCCCCHHH-H-HHHHHHHHhcC-ChHHHHHHHHHHHHc------CCCC-c-----
Q 039362          166 LIDGYVKCGD-YKEALVIFEEMRDVGSKANEVT-L-VSVLCACAHLG-ALDQGRMMLRYMIDK------GLSL-T-----  229 (440)
Q Consensus       166 l~~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~-~-~~l~~~~~~~~-~~~~a~~~~~~~~~~------~~~~-~-----  229 (440)
                      ++..+...++ ++.|..+++++...  .|.... + ..++..+...+ +--+|.+++.+..+.      ..++ +     
T Consensus       254 Ll~~~~~t~~~~~~a~~~le~L~~~--~p~~~~~~~~~~i~~~~~~~~~Ev~av~ll~~~l~~~~~~~~~l~~~~~~~~~  331 (754)
T 4gns_B          254 LKSFIAITPSLVDFTIDYLKGLTKK--DPIHDIYYKTAMITILDHIETKELDMITILNETLDPLLSLLNDLPPRDADSAR  331 (754)
T ss_dssp             HHHHHHTCGGGHHHHHHHHHHHHHH--CGGGHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHHHHHHHTCSSCCHHHHH
T ss_pred             HHHHHcccccHHHHHHHHHHHHHhh--CCchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHhhhhhhhhccccccccc
Confidence            3344444455 57788888888776  333222 2 22233222222 222444554444321      1111 1     


Q ss_pred             -----hhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCCc-hhhHHHHHHHHHhcCChHHHHHHHHHH
Q 039362          230 -----LPLQTSLIDMYAKCGAIKEALIVFHGVEKHQSD-VLIWNAMIGGLAMHGFVKESLELFTEM  289 (440)
Q Consensus       230 -----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~m  289 (440)
                           ......-+..+...|+++-|+.+-++.....|+ -.+|..|...|...|+++.|+-.+..+
T Consensus       332 ~~~~~~~LL~~Qa~FLl~K~~~elAL~~Ak~AV~~aPseF~tW~~La~vYi~l~d~e~ALLtLNSc  397 (754)
T 4gns_B          332 LMNCMSDLLNIQTNFLLNRGDYELALGVSNTSTELALDSFESWYNLARCHIKKEEYEKALFAINSM  397 (754)
T ss_dssp             HHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHS
T ss_pred             ccCcchHHHHHHHHHHhccCcHHHHHHHHHHHHhcCchhhHHHHHHHHHHHHhccHHHHHHHHhcC
Confidence                 112233345566788999999998888877774 678999999999999999998888765

>2wpv_A GET4, UPF0363 protein YOR164C; golgi-ER trafficking, tail-anchored protein, protein binding GET4; 1.99A {Saccharomyces cerevisiae} PDB: 3lku_A

Probab=92.92  E-value=3.7  Score=34.46  Aligned_cols=165  Identities=10%  Similarity=0.020  Sum_probs=91.6

Q ss_pred             HHHHHHHhcCCHHHHHHHHhhhhhcCCchhhHHHHHHHHHhcCChHHHHHH----HHHHHHcCCCccHhhHHHHHHHHHc
Q 039362          235 SLIDMYAKCGAIKEALIVFHGVEKHQSDVLIWNAMIGGLAMHGFVKESLEL----FTEMQIVGITPDEITFLGLLSACAH  310 (440)
Q Consensus       235 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~----~~~m~~~~~~p~~~~~~~l~~~~~~  310 (440)
                      ++..=|.+.+++++|++++..-.             ..+.+.|+...|.++    .+-..+.+.+++......++..+..
T Consensus        38 tl~~Ry~~~~~~~eAidlL~~ga-------------~~ll~~~Q~~sa~DLa~llvev~~~~~~~~~~~~~~rl~~l~~~  104 (312)
T 2wpv_A           38 TIANRYVRSKSYEHAIELISQGA-------------LSFLKAKQGGSGTDLIFYLLEVYDLAEVKVDDISVARLVRLIAE  104 (312)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHH-------------HHHHHTTCHHHHHHHHHHHHHHHHHTTCCCSHHHHHHHHHHHTT
T ss_pred             HHHHHHHHhcCHHHHHHHHHHHH-------------HHHHHCCCcchHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH
Confidence            33444556667777766655433             234455665554443    4444556677777666666666544


Q ss_pred             CCChH-HHHHHHHHHhh----cC--CCCCcchHHHHHHHHHhcCCHHHHHHHHhcCCCCccHhHHHHHHHHHHhc---CC
Q 039362          311 GGLVM-EAWYFFKSLGK----RG--MVPKSEHYACMVDALSRAGQVTEAYEFICQMPLEPTASMLGSLLTGCMNH---GK  380 (440)
Q Consensus       311 ~~~~~-~a~~~~~~~~~----~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~p~~~~~~~l~~~~~~~---g~  380 (440)
                      -...+ .-.++++++++    .|  ..-++.....+...|.+.|++.+|...|- .+-.-+...+..++.-+...   |.
T Consensus       105 ~p~~~~~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~~a~~~~~e~~~~~A~~H~i-~~~~~s~~~~a~~l~~w~~~~~~~~  183 (312)
T 2wpv_A          105 LDPSEPNLKDVITGMNNWSIKFSEYKFGDPYLHNTIGSKLLEGDFVYEAERYFM-LGTHDSMIKYVDLLWDWLCQVDDIE  183 (312)
T ss_dssp             CCTTCTTHHHHHHHHHHHHHHTSSCTTCCHHHHHHHHHHHHHTTCHHHHHHHHH-TSCHHHHHHHHHHHHHHHHHTTCCC
T ss_pred             CCCCCchHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHhhcCCHHHHHHHHH-hCCCccHHHHHHHHHHHHHhcCCCC
Confidence            22111 11233333332    11  12256677888888999999999988776 33222455665555555444   44


Q ss_pred             hhHHHHHHHHHHhcCCCCCchHHHHHHHHHhccChHHHHHHHHHHHh
Q 039362          381 LDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEARTTREAMET  427 (440)
Q Consensus       381 ~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  427 (440)
                      ..++--+.              ...+-.|.-.|+...|..+++...+
T Consensus       184 ~~e~dlf~--------------~RaVL~yL~l~n~~~A~~~~~~f~~  216 (312)
T 2wpv_A          184 DSTVAEFF--------------SRLVFNYLFISNISFAHESKDIFLE  216 (312)
T ss_dssp             HHHHHHHH--------------HHHHHHHHHTTBHHHHHHHHHHHHH
T ss_pred             cchHHHHH--------------HHHHHHHHHhcCHHHHHHHHHHHHH
Confidence            43332221              2223345567888888888877654

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=92.64  E-value=2.1  Score=30.88  Aligned_cols=71  Identities=13%  Similarity=-0.051  Sum_probs=42.8

Q ss_pred             CCCHHHHHHHHHHHHhcCC---hHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCCc
Q 039362          192 KANEVTLVSVLCACAHLGA---LDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQSD  262 (440)
Q Consensus       192 ~~~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  262 (440)
                      .|+..+-.....++.+..+   ..+++.+++.+.+.+........-.|.-++.+.|++++|.++.+.+.+..|+
T Consensus        36 ~vs~~t~F~YAw~Lv~S~~~~di~~GI~LLe~l~~~~~~~~RdcLYyLAvg~ykl~~Y~~Ar~y~d~lL~~eP~  109 (144)
T 1y8m_A           36 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHERN  109 (144)
T ss_dssp             TSCHHHHHHHHHHHHHSSSHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHTCCC
T ss_pred             CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCccchhHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCCC
Confidence            4566565556666666554   3456667777666542223334445566677777777777777777766664

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=92.62  E-value=7  Score=39.95  Aligned_cols=81  Identities=6%  Similarity=-0.055  Sum_probs=45.4

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHcCCCCch----hhHHHHHHHHHhcCCHHHHHHHHhhhhhcCCchhhHHHHHHHH
Q 039362          198 LVSVLCACAHLGALDQGRMMLRYMIDKGLSLTL----PLQTSLIDMYAKCGAIKEALIVFHGVEKHQSDVLIWNAMIGGL  273 (440)
Q Consensus       198 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~  273 (440)
                      |..++..+.+.+.++.+.++-....+...+.+.    ..|..+...+...|++++|...+..+.....-......++...
T Consensus       902 Y~hv~~LFe~~~~~~~vi~fa~lAi~~~~~~~~~~~~~l~~~iFk~~L~l~~ye~Ay~aL~~~pd~~~r~~cLr~LV~~l  981 (1139)
T 4fhn_B          902 YLHLSKKLFEESAYIDALEFSLLADASKETDDEDLSIAITHETLKTACAAGKFDAAHVALMVLSTTPLKKSCLLDFVNQL  981 (1139)
T ss_dssp             HHHHHHHHHHTSCCHHHHHHHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHCCSGGGGHHHHHHHHSSSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhccCCChhhHHHHHHHHHHHHHhhCCHHHHHHHHHhCCCHHHHHHHHHHHHHHH
Confidence            556666666777777776666655544322221    2455666667777777777666666553333334445555544


Q ss_pred             HhcCC
Q 039362          274 AMHGF  278 (440)
Q Consensus       274 ~~~~~  278 (440)
                      +..|.
T Consensus       982 ce~~~  986 (1139)
T 4fhn_B          982 TKQGK  986 (1139)
T ss_dssp             HHHCC
T ss_pred             HhCCC
Confidence            44443

>3lpz_A GET4 (YOR164C homolog); protein targeting, tail-anchored protein biogenesis, GET PAT GET5 binding, protein transport; 1.98A {Chaetomium thermophilum}

Probab=92.57  E-value=4.3  Score=34.35  Aligned_cols=164  Identities=14%  Similarity=0.074  Sum_probs=90.7

Q ss_pred             HHHHHHhcCCHHHHHHHHhhhhhcCCchhhHHHHHHHHHhcCChHHHHHH----HHHHHHcCCCccHhhHHHHHHHHHcC
Q 039362          236 LIDMYAKCGAIKEALIVFHGVEKHQSDVLIWNAMIGGLAMHGFVKESLEL----FTEMQIVGITPDEITFLGLLSACAHG  311 (440)
Q Consensus       236 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~----~~~m~~~~~~p~~~~~~~l~~~~~~~  311 (440)
                      +..=|.+.+++++|++++..-.             ..+.+.|+...|.++    ++-..+.++++|......++..+...
T Consensus        41 i~~Ry~~~k~y~eAidLL~~GA-------------~~ll~~~Q~~sg~DL~~llvevy~~~~~~~~~~~~~rL~~L~~~~  107 (336)
T 3lpz_A           41 VAARYSKQGNWAAAVDILASVS-------------QTLLRSGQGGSGGDLAVLLVDTFRQAGQRVDGASRGKLLGCLRLF  107 (336)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHH-------------HHHHHTTCHHHHHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTS
T ss_pred             HHHHHHhhcCHHHHHHHHHHHH-------------HHHHHCCCcchHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhC
Confidence            3334556666777666654433             233444554443333    24445556666666666666655443


Q ss_pred             CChH-HHHHHHHHHhh----cC--CCCCcchHHHHHHHHHhcCCHHHHHHHHhcCCCCccHhHHHHHHHHHHhcCChhHH
Q 039362          312 GLVM-EAWYFFKSLGK----RG--MVPKSEHYACMVDALSRAGQVTEAYEFICQMPLEPTASMLGSLLTGCMNHGKLDLA  384 (440)
Q Consensus       312 ~~~~-~a~~~~~~~~~----~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a  384 (440)
                      ..-+ .=..+.+++++    .|  ..-|+.....+...|.+.+++.+|...|- .+-.+.+..+..++..+...+...++
T Consensus       108 ~~~~p~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~ig~~~~~e~~~~~Ae~H~i-lg~~~s~~~~a~mL~ew~~~~~~~e~  186 (336)
T 3lpz_A          108 QPGEPVRKRFVKEMIDWSKKFGDYPAGDPELHHVVGTLYVEEGEFEAAEKHLV-LGTKESPEVLARMEYEWYKQDESHTA  186 (336)
T ss_dssp             CTTCHHHHHHHHHHHHHHHHHSSCTTCCHHHHHHHHHHHHHTTCHHHHHHHHT-TSCTTHHHHHHHHHHHHHHTSCGGGH
T ss_pred             CCCCcHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCHHHHHHHHH-hcCCchHHHHHHHHHHHHHhcCCccH
Confidence            3211 11222222221    12  22366677788899999999999998884 35455556776666555544432222


Q ss_pred             HHHHHHHHhcCCCCCchHHHHHHHHHhccChHHHHHHHHHHHh
Q 039362          385 EIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEARTTREAMET  427 (440)
Q Consensus       385 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  427 (440)
                      --              .....+--|.-.++...|..+++...+
T Consensus       187 dl--------------fiaRaVL~yL~l~n~~~A~~~~~~f~~  215 (336)
T 3lpz_A          187 PL--------------YCARAVLPYLLVANVRAANTAYRIFTS  215 (336)
T ss_dssp             HH--------------HHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HH--------------HHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            11              222334456677888888887766654

>3ltm_A Alpha-REP4; protein engineering, heat-like repeat, protein binding; HET: 1PE 12P; 2.15A {Synthetic}

Probab=92.53  E-value=3  Score=32.55  Aligned_cols=93  Identities=11%  Similarity=0.078  Sum_probs=38.6

Q ss_pred             CCchhhHHHHHHHHHhcCChHHHHHHHhhCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHH
Q 039362          126 TKMSVSWNSMLDGYAKCGEMNMARQVFELMPERNVVSWSALIDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCAC  205 (440)
Q Consensus       126 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  205 (440)
                      +++...-...+.++.+.++.+....+...+.+++..+-...+.++...+..+ +...+..+..   .++...-...+.++
T Consensus        92 ~~~~~vr~~a~~aL~~~~~~~~~~~L~~~l~d~~~~vr~~a~~aL~~~~~~~-~~~~L~~~l~---d~~~~vr~~a~~aL  167 (211)
T 3ltm_A           92 DEDGWVRQSAAVALGQIGDERAVEPLIKALKDEDWFVRIAAAFALGEIGDER-AVEPLIKALK---DEDGWVRQSAADAL  167 (211)
T ss_dssp             CSSHHHHHHHHHHHHHHCCGGGHHHHHHHTTCSSHHHHHHHHHHHHHHCCGG-GHHHHHHHTT---CSSHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHhCcHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCHH-HHHHHHHHHc---CCCHHHHHHHHHHH
Confidence            3343333344444444444333333333333344444444444444444422 3333333332   33444444455555


Q ss_pred             HhcCChHHHHHHHHHHHH
Q 039362          206 AHLGALDQGRMMLRYMID  223 (440)
Q Consensus       206 ~~~~~~~~a~~~~~~~~~  223 (440)
                      ...+. ..+...+..+.+
T Consensus       168 ~~~~~-~~~~~~L~~~l~  184 (211)
T 3ltm_A          168 GEIGG-ERVRAAMEKLAE  184 (211)
T ss_dssp             HHHCS-HHHHHHHHHHHH
T ss_pred             HHhCc-hhHHHHHHHHHh
Confidence            55554 334444444443

>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=92.25  E-value=1.3  Score=29.63  Aligned_cols=63  Identities=14%  Similarity=0.137  Sum_probs=49.9

Q ss_pred             ChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHH
Q 039362          278 FVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVD  341 (440)
Q Consensus       278 ~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  341 (440)
                      +.-+..+-++.+....+.|++......+++|.+.+++..|.++|+-++.+ ..+...+|..+++
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            44567777777777888999999999999999999999999999988776 2234556777665

>1zbp_A Hypothetical protein VPA1032; alpha-beta protein, structural genomics, PSI, protein struct initiative; 2.40A {Vibrio parahaemolyticus} SCOP: e.61.1.1

Probab=91.93  E-value=1.9  Score=34.99  Aligned_cols=119  Identities=17%  Similarity=0.093  Sum_probs=60.6

Q ss_pred             HHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCCcc----hHHHHHHHHHhcCC
Q 039362          273 LAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSE----HYACMVDALSRAGQ  348 (440)
Q Consensus       273 ~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~----~~~~l~~~~~~~~~  348 (440)
                      ..+.|+.+++++....-++.. +.|...-..++..+|-.|+++.|.+-++...+..  |+..    .|..+|++      
T Consensus         7 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            7 ALSEGQLQQALELLIEAIKAS-PKDASLRSSFIELLCIDGDFERADEQLMQSIKLF--PEYLPGASQLRHLVKA------   77 (273)
T ss_dssp             HTTTTCHHHHHHHHHHHHHTC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--GGGHHHHHHHHHHHHH------
T ss_pred             HHhCCCHHHHHHHHHHHHHhC-CcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC--chhhHHHHHHHHHHHH------
Confidence            445566666666666655543 4444455555666666666666666666655532  3222    22222222      


Q ss_pred             HHHHH-HHHhcC---C-CCccHhHHHHHHHHH--HhcCChhHHHHHHHHHHhcCCCCCch
Q 039362          349 VTEAY-EFICQM---P-LEPTASMLGSLLTGC--MNHGKLDLAEIVGKKLVELQPDHDGR  401 (440)
Q Consensus       349 ~~~a~-~~~~~~---~-~~p~~~~~~~l~~~~--~~~g~~~~a~~~~~~~~~~~~~~~~~  401 (440)
                       +... ++|.--   + +.....-...++.+.  ...|+.++|..+-.++.+.-|..+..
T Consensus        78 -E~~R~~vfaG~~~P~~~g~~~~w~~~ll~Al~~~~~G~~~~A~~lr~~A~e~ap~~~G~  136 (273)
T 1zbp_A           78 -AQARKDFAQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEELRQEKGFL  136 (273)
T ss_dssp             -HHHHHHHTTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCCCCEE
T ss_pred             -HHHHHHHHcCCCCCCCCCCCHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCcccCCC
Confidence             1111 122211   0 111112223444443  35688888888888888877665543

>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=91.81  E-value=0.72  Score=40.48  Aligned_cols=53  Identities=9%  Similarity=0.263  Sum_probs=22.8

Q ss_pred             HHHHHHhcCCHHHHHHHHhhhhhcCC-chhhHHHHHHHHHhcCChHHHHHHHHH
Q 039362          236 LIDMYAKCGAIKEALIVFHGVEKHQS-DVLIWNAMIGGLAMHGFVKESLELFTE  288 (440)
Q Consensus       236 l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~  288 (440)
                      ++..+...|+++++...+..+....| +...+..+|.++.+.|+..+|++.|+.
T Consensus       177 ~~~~~l~~g~~~~a~~~l~~~~~~~P~~E~~~~~lm~al~~~Gr~~~Al~~y~~  230 (388)
T 2ff4_A          177 KAEAEIACGRASAVIAELEALTFEHPYREPLWTQLITAYYLSDRQSDALGAYRR  230 (388)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHTTTCHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            33444444444444444444433333 333444444444444444444444444

>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=91.62  E-value=1.5  Score=29.25  Aligned_cols=47  Identities=17%  Similarity=0.170  Sum_probs=24.8

Q ss_pred             HHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 039362          178 EALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDK  224 (440)
Q Consensus       178 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  224 (440)
                      ++.+-++.+....+.|++......+++|.+.+++..|.++++-+..+
T Consensus        28 e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K   74 (109)
T 1v54_E           28 ELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK   74 (109)
T ss_dssp             HHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH
Confidence            34444444444555555555555555555555555555555555443

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=91.13  E-value=12  Score=36.71  Aligned_cols=253  Identities=11%  Similarity=-0.072  Sum_probs=134.2

Q ss_pred             HHhcCCHHHHHHHHHHHHhcCCCCCHHHH--HHHHHHHHhcCChHHHHHHHHHHHHcCC-------CCchhhHHHHHHHH
Q 039362          170 YVKCGDYKEALVIFEEMRDVGSKANEVTL--VSVLCACAHLGALDQGRMMLRYMIDKGL-------SLTLPLQTSLIDMY  240 (440)
Q Consensus       170 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~--~~l~~~~~~~~~~~~a~~~~~~~~~~~~-------~~~~~~~~~l~~~~  240 (440)
                      ....|+.++++.++......+...+..+-  ..+.-+....|..+++..++...+...-       .+....-..+.-++
T Consensus       384 lIh~g~~~~gl~~L~~yL~~~~s~~~~ik~GAllaLGli~ag~~~~~~~lL~~~L~~~~~~~~~~~~~~ir~gAaLGLGl  463 (963)
T 4ady_A          384 VIHKGNLLEGKKVMAPYLPGSRASSRFIKGGSLYGLGLIYAGFGRDTTDYLKNIIVENSGTSGDEDVDVLLHGASLGIGL  463 (963)
T ss_dssp             HHTSSCTTTHHHHHTTTSTTSCCSCHHHHHHHHHHHHHHTTTTTHHHHHHHHHHHHHHSSCCSCHHHHHHHHHHHHHHHH
T ss_pred             hhccCchHHHHHHHHHhccccCCCcHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHcCccccccccccHHHHHHHHHHHHH
Confidence            44567777888887776542111222222  2333345566666678887777665431       01122223333333


Q ss_pred             --HhcCCHHHHHHHHhhhhhcCCchhh-HH--HHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChH
Q 039362          241 --AKCGAIKEALIVFHGVEKHQSDVLI-WN--AMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVM  315 (440)
Q Consensus       241 --~~~g~~~~A~~~~~~~~~~~~~~~~-~~--~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~  315 (440)
                        .-.++ +++.+.+..+......... ..  ++...+.-.|+.+....++..+.+.. .-+..-+..+.-++...|+.+
T Consensus       464 a~~GS~~-eev~e~L~~~L~dd~~~~~~~AalALGli~vGTgn~~ai~~LL~~~~e~~-~e~vrR~aalgLGll~~g~~e  541 (963)
T 4ady_A          464 AAMGSAN-IEVYEALKEVLYNDSATSGEAAALGMGLCMLGTGKPEAIHDMFTYSQETQ-HGNITRGLAVGLALINYGRQE  541 (963)
T ss_dssp             HSTTCCC-HHHHHHHHHHHHTCCHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHCS-CHHHHHHHHHHHHHHTTTCGG
T ss_pred             HhcCCCC-HHHHHHHHHHHhcCCHHHHHHHHHHHhhhhcccCCHHHHHHHHHHHhccC-cHHHHHHHHHHHHhhhCCChH
Confidence              33344 4555555555432222211 22  23344556788888888888776532 222222333444455778999


Q ss_pred             HHHHHHHHHhhcCCCCCcchH--HHHHHHHHhcCCHHHHHHHHhcCC--CCccHhHHHHHHHHHHhcCChhHHHHHHHHH
Q 039362          316 EAWYFFKSLGKRGMVPKSEHY--ACMVDALSRAGQVTEAYEFICQMP--LEPTASMLGSLLTGCMNHGKLDLAEIVGKKL  391 (440)
Q Consensus       316 ~a~~~~~~~~~~~~~~~~~~~--~~l~~~~~~~~~~~~a~~~~~~~~--~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~  391 (440)
                      .+..+.+.+.... .|....-  ..+.-+|+..|+.....+++..+.  ...++.-...+.-++...|+.+.+.++++.+
T Consensus       542 ~~~~li~~L~~~~-dp~vRygaa~alglAyaGTGn~~aIq~LL~~~~~d~~d~VRraAViaLGlI~~g~~e~v~rlv~~L  620 (963)
T 4ady_A          542 LADDLITKMLASD-ESLLRYGGAFTIALAYAGTGNNSAVKRLLHVAVSDSNDDVRRAAVIALGFVLLRDYTTVPRIVQLL  620 (963)
T ss_dssp             GGHHHHHHHHHCS-CHHHHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHCSCHHHHHHHHHHHHHHTSSSCSSHHHHTTTG
T ss_pred             HHHHHHHHHHhCC-CHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHhccCCcHHHHHHHHHHHHhhccCCHHHHHHHHHHH
Confidence            9999988887631 2222211  234456778889877777888772  2233333333444455577777667766655


Q ss_pred             HhcCCCCCchHHH--HHHHHHhccCh-HHHHHHHHHHHh
Q 039362          392 VELQPDHDGRYVG--LSNVYAIFKRW-DEARTTREAMET  427 (440)
Q Consensus       392 ~~~~~~~~~~~~~--l~~~~~~~g~~-~~A~~~~~~~~~  427 (440)
                      .+..  ++.+-..  ++.+....|+. .+|..++..+..
T Consensus       621 ~~~~--d~~VR~gAalALGli~aGn~~~~aid~L~~L~~  657 (963)
T 4ady_A          621 SKSH--NAHVRCGTAFALGIACAGKGLQSAIDVLDPLTK  657 (963)
T ss_dssp             GGCS--CHHHHHHHHHHHHHHTSSSCCHHHHHHHHHHHT
T ss_pred             HhcC--CHHHHHHHHHHHHHhccCCCcHHHHHHHHHHcc
Confidence            5433  2333332  33333333433 567777777754

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=90.30  E-value=9.6  Score=34.05  Aligned_cols=94  Identities=14%  Similarity=0.128  Sum_probs=63.1

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHc--CCCcc---HhhHHHHHHHHHcCCChHHHHHHHHHHhhc----CCCCC--cc
Q 039362          266 WNAMIGGLAMHGFVKESLELFTEMQIV--GITPD---EITFLGLLSACAHGGLVMEAWYFFKSLGKR----GMVPK--SE  334 (440)
Q Consensus       266 ~~~l~~~~~~~~~~~~a~~~~~~m~~~--~~~p~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~--~~  334 (440)
                      ...|...+...|++.+|..++..+...  |..+.   ...+...++.|...+++..|..+++++...    ...|+  ..
T Consensus       140 ~~~La~i~e~~g~~~eA~~iL~~l~~Et~~~~~~~~kve~~l~q~rl~l~~~d~~~a~~~~~ki~~~~~~~~~~~~lk~~  219 (445)
T 4b4t_P          140 TKDLVEIKKEEGKIDEAADILCELQVETYGSMEMSEKIQFILEQMELSILKGDYSQATVLSRKILKKTFKNPKYESLKLE  219 (445)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSSCCHHHHHH
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhcccCCcHHHHHH
Confidence            345677788888888888888887532  21111   134556677788889999998888886532    11222  23


Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHhcC
Q 039362          335 HYACMVDALSRAGQVTEAYEFICQM  359 (440)
Q Consensus       335 ~~~~l~~~~~~~~~~~~a~~~~~~~  359 (440)
                      .+...+..+...+++.+|-+.|.+.
T Consensus       220 ~~~~~~~~~~~e~~y~~a~~~y~e~  244 (445)
T 4b4t_P          220 YYNLLVKISLHKREYLEVAQYLQEI  244 (445)
T ss_dssp             HHHHHHHHHHHHCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHH
Confidence            4566777778888888888777766

>1zbp_A Hypothetical protein VPA1032; alpha-beta protein, structural genomics, PSI, protein struct initiative; 2.40A {Vibrio parahaemolyticus} SCOP: e.61.1.1

Probab=89.95  E-value=0.8  Score=37.15  Aligned_cols=54  Identities=11%  Similarity=0.095  Sum_probs=31.1

Q ss_pred             HHhcCChhHHHHHHHHHHhcCCCCCchHHHHHHHHHhccChHHHHHHHHHHHhc
Q 039362          375 CMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEARTTREAMETR  428 (440)
Q Consensus       375 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  428 (440)
                      ..+.|+.++|+.....-++.+|.|...-..+...++-.|+|++|.+-++...+.
T Consensus         7 ll~~g~L~~al~~~~~~VR~~P~da~~R~~LfqLLcv~G~w~RA~~QL~~~a~l   60 (273)
T 1zbp_A            7 ALSEGQLQQALELLIEAIKASPKDASLRSSFIELLCIDGDFERADEQLMQSIKL   60 (273)
T ss_dssp             HTTTTCHHHHHHHHHHHHHTCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHhCCCHHHHHHHHHHHHHhCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh
Confidence            345555666666666666666666555555566666666666665555555443

>2uwj_G Type III export protein PSCG; virulence, chaperones, coiled coil, needle formation, type III secretion, bacterial pathogenicity; 2.0A {Pseudomonas aeruginosa}

Probab=89.93  E-value=3  Score=27.66  Aligned_cols=88  Identities=16%  Similarity=0.133  Sum_probs=61.2

Q ss_pred             CChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCCchhhHHHHHHHHHhcCChHHHHHHHHH
Q 039362          209 GALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQSDVLIWNAMIGGLAMHGFVKESLELFTE  288 (440)
Q Consensus       209 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  288 (440)
                      ...++|..+-+.+...+.  ...+-..-+..+.+.|++++|..+.+...  .||...|-++..  .+.|-.+++..-+.+
T Consensus        20 H~HqEA~tIAdwL~~~~~--~E~v~lIR~sSLmNrG~Yq~Al~l~~~~c--~pdlepw~ALce--~rlGl~s~le~rL~~   93 (115)
T 2uwj_G           20 HCHEEALCIAEWLERLGQ--DEAARLIRISSLANQGRYQEALAFAHGNP--WPALEPWFALCE--WHLGLGAALDRRLAG   93 (115)
T ss_dssp             TCHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHTTCHHHHHGGGTTCC--CGGGHHHHHHHH--HHTTCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHhCCc--HHHHHHHHHHHHHcchhHHHHHHhcCCCC--CchHHHHHHHHH--HhcccHHHHHHHHHH
Confidence            356777777777766552  33333333556778899999988888877  888888877754  467888888888878


Q ss_pred             HHHcCCCccHhhHHH
Q 039362          289 MQIVGITPDEITFLG  303 (440)
Q Consensus       289 m~~~~~~p~~~~~~~  303 (440)
                      +...| .|....|..
T Consensus        94 la~sg-~p~~q~Fa~  107 (115)
T 2uwj_G           94 LGGSS-DPALADFAA  107 (115)
T ss_dssp             HHTCS-SHHHHHHHH
T ss_pred             HHhCC-CHHHHHHHH
Confidence            77776 565555543

>3lpz_A GET4 (YOR164C homolog); protein targeting, tail-anchored protein biogenesis, GET PAT GET5 binding, protein transport; 1.98A {Chaetomium thermophilum}

Probab=89.90  E-value=8.2  Score=32.65  Aligned_cols=167  Identities=11%  Similarity=0.050  Sum_probs=93.8

Q ss_pred             HHHHHHHHHhcCChHHHHHHHhhCCCCchhhHHHHHHHHHhcCCHHHHHHH----HHHHHhcCCCCCHHHHHHHHHHHHh
Q 039362          132 WNSMLDGYAKCGEMNMARQVFELMPERNVVSWSALIDGYVKCGDYKEALVI----FEEMRDVGSKANEVTLVSVLCACAH  207 (440)
Q Consensus       132 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~----~~~~~~~~~~~~~~~~~~l~~~~~~  207 (440)
                      |.++..-|.+.+++++|++++..-           ...+.+.|+...+-++    ++.+.+.++++|......++..+..
T Consensus        38 ~RTi~~Ry~~~k~y~eAidLL~~G-----------A~~ll~~~Q~~sg~DL~~llvevy~~~~~~~~~~~~~rL~~L~~~  106 (336)
T 3lpz_A           38 TRLVAARYSKQGNWAAAVDILASV-----------SQTLLRSGQGGSGGDLAVLLVDTFRQAGQRVDGASRGKLLGCLRL  106 (336)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHH-----------HHHHHHTTCHHHHHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHhhcCHHHHHHHHHHH-----------HHHHHHCCCcchHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh
Confidence            345556667777777777664322           2344555665554443    3555666778888777777777765


Q ss_pred             cCChH-HHHHHH----HHHHHcC--CCCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCCchhhHHHHHHHHHhcCChH
Q 039362          208 LGALD-QGRMML----RYMIDKG--LSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQSDVLIWNAMIGGLAMHGFVK  280 (440)
Q Consensus       208 ~~~~~-~a~~~~----~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  280 (440)
                      ...-+ .=..++    .+-.+.|  ..-|+.....+...|.+.+++.+|...|-  ....+....+..++.-+...+...
T Consensus       107 ~~~~~p~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~ig~~~~~e~~~~~Ae~H~i--lg~~~s~~~~a~mL~ew~~~~~~~  184 (336)
T 3lpz_A          107 FQPGEPVRKRFVKEMIDWSKKFGDYPAGDPELHHVVGTLYVEEGEFEAAEKHLV--LGTKESPEVLARMEYEWYKQDESH  184 (336)
T ss_dssp             SCTTCHHHHHHHHHHHHHHHHHSSCTTCCHHHHHHHHHHHHHTTCHHHHHHHHT--TSCTTHHHHHHHHHHHHHHTSCGG
T ss_pred             CCCCCcHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCHHHHHHHHH--hcCCchHHHHHHHHHHHHHhcCCc
Confidence            54311 112222    2223333  34567788889999999999999988884  221333355544444433333211


Q ss_pred             HHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHhh
Q 039362          281 ESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGK  326 (440)
Q Consensus       281 ~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  326 (440)
                                    .++...-..++. |.-.++...|..+++...+
T Consensus       185 --------------e~dlfiaRaVL~-yL~l~n~~~A~~~~~~f~~  215 (336)
T 3lpz_A          185 --------------TAPLYCARAVLP-YLLVANVRAANTAYRIFTS  215 (336)
T ss_dssp             --------------GHHHHHHHHHHH-HHHTTCHHHHHHHHHHHHH
T ss_pred             --------------cHHHHHHHHHHH-HHHhCCHHHHHHHHHHHHH
Confidence                          122222333333 4445788888777665553

>2p58_C Putative type III secretion protein YSCG; type III secretion system, structure, needle protein, YSCE, YSCF, transport protein/chaperone complex; 1.80A {Yersinia pestis}

Probab=89.53  E-value=3.3  Score=27.54  Aligned_cols=88  Identities=15%  Similarity=0.124  Sum_probs=58.8

Q ss_pred             CChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCCchhhHHHHHHHHHhcCChHHHHHHHHH
Q 039362          209 GALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQSDVLIWNAMIGGLAMHGFVKESLELFTE  288 (440)
Q Consensus       209 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  288 (440)
                      ...++|..+-+.+...+.  ...+-..-+..+.+.|++++|..+.+...  .||...|-++..  .+.|-.+++..-+.+
T Consensus        21 H~HqEA~tIAdwL~~~~~--~E~v~lIR~sSLmNrG~Yq~Al~l~~~~c--~pdlepw~ALce--~rlGl~s~le~rL~~   94 (116)
T 2p58_C           21 HYHEEANCIAEWLHLKGE--EEAVQLIRLSSLMNRGDYASALQQGNKLA--YPDLEPWLALCE--YRLGLGSALESRLNR   94 (116)
T ss_dssp             TCHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHTTCHHHHHHHHTTSC--CGGGHHHHHHHH--HHHTCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHhCCc--HHHHHHHHHHHHHcchhHHHHHHhcCCCC--CchHHHHHHHHH--HhcccHHHHHHHHHH
Confidence            356777777777766552  22233333456778888888888888877  888888877754  466777777777777


Q ss_pred             HHHcCCCccHhhHHH
Q 039362          289 MQIVGITPDEITFLG  303 (440)
Q Consensus       289 m~~~~~~p~~~~~~~  303 (440)
                      +...| .|....|..
T Consensus        95 la~sg-~p~~q~Fa~  108 (116)
T 2p58_C           95 LARSQ-DPRIQTFVN  108 (116)
T ss_dssp             HTTCC-CHHHHHHHH
T ss_pred             HHhCC-CHHHHHHHH
Confidence            77666 555555543

>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=89.51  E-value=2.6  Score=29.84  Aligned_cols=63  Identities=14%  Similarity=0.137  Sum_probs=50.2

Q ss_pred             ChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHH
Q 039362          278 FVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVD  341 (440)
Q Consensus       278 ~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  341 (440)
                      +.-+..+-++.+....+.|++......+.+|.+.+++..|.++|+-++.+ ..+...+|..+++
T Consensus        68 D~wElrrglN~l~~~DlVPeP~Ii~AALrAcRRvNDfalAVR~lE~vK~K-~~~~~~iY~y~lq  130 (152)
T 2y69_E           68 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK-AGPHKEIYPYVIQ  130 (152)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-TTTCTTHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHh-cCCchhhHHHHHH
Confidence            34456667777777788999999999999999999999999999988776 2344667877765

>3ltm_A Alpha-REP4; protein engineering, heat-like repeat, protein binding; HET: 1PE 12P; 2.15A {Synthetic}

Probab=88.76  E-value=7.1  Score=30.38  Aligned_cols=17  Identities=18%  Similarity=0.430  Sum_probs=7.4

Q ss_pred             cHHHHHHHHHHHHhcCC
Q 039362           97 DLFISNSLIHMYGSCGD  113 (440)
Q Consensus        97 ~~~~~~~l~~~~~~~g~  113 (440)
                      +..+-...+..+.+.|+
T Consensus        32 ~~~vR~~A~~~L~~~~~   48 (211)
T 3ltm_A           32 SYYVRRAAAYALGKIGD   48 (211)
T ss_dssp             SHHHHHHHHHHHHHHCC
T ss_pred             CHHHHHHHHHHHHHhCC
Confidence            34444444444444444

>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=87.88  E-value=5.1  Score=30.86  Aligned_cols=47  Identities=11%  Similarity=-0.092  Sum_probs=27.3

Q ss_pred             HHHHHHHHhcC---CCCc-cHhHHHHHHHHHHhcCChhHHHHHHHHHHhcC
Q 039362          349 VTEAYEFICQM---PLEP-TASMLGSLLTGCMNHGKLDLAEIVGKKLVELQ  395 (440)
Q Consensus       349 ~~~a~~~~~~~---~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  395 (440)
                      ..++.++|.-|   ++-- -...|......+...|++.+|.++|+..++.+
T Consensus        95 ~~~p~~if~~L~~~~IG~~~AlfYe~wA~~lE~~g~~~~A~~Vy~~GI~~~  145 (202)
T 3esl_A           95 FHESENTFKYMFNKGIGTKLSLFYEEFSKLLENAQFFLEAKVLLELGAENN  145 (202)
T ss_dssp             HHHHHHHHHHHHHHTSSTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT
T ss_pred             cCCHHHHHHHHHHCCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC
Confidence            44555665555   3222 33455556666666677777777777666655

>3ltj_A Alpharep-4; protein engineering, heat-like repeat, protein binding; 1.80A {Synthetic}

Probab=87.58  E-value=8.2  Score=29.71  Aligned_cols=119  Identities=13%  Similarity=0.131  Sum_probs=49.1

Q ss_pred             HHHhhhcCCCChHHHHHHHHHHHccCChhhHHHHHHHHHHcCCCCCcchHHHHHHHhhchhcHHHHHHHHHHHHHcCCCC
Q 039362           17 CKVLSHLSNPRIFYWNTVIRGYSKSKNPNKSISLFVKMLRAGVSPDHLTYPFLAKASGRLAKRELAVAVHAQIAKTGYES   96 (440)
Q Consensus        17 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~   96 (440)
                      -.+++.+..+|...-...+..+.+.+.......+ .++..   .++...-...+.++...++.+.. ..+..+..   .+
T Consensus        17 ~~~i~~L~~~~~~vr~~A~~~L~~~~~~~~~~~L-~~~l~---~~~~~vr~~a~~~L~~~~~~~~~-~~L~~~l~---d~   88 (201)
T 3ltj_A           17 EMYIKNLQDDSYYVRRAAAYALGKIGDERAVEPL-IKALK---DEDAWVRRAAADALGQIGDERAV-EPLIKALK---DE   88 (201)
T ss_dssp             HHHHHHTTCSCHHHHHHHHHHHHHHCCGGGHHHH-HHHTT---CSSHHHHHHHHHHHHHHCCGGGH-HHHHHHTT---CS
T ss_pred             HHHHHHhcCCCHHHHHHHHHHHHhcCChhHHHHH-HHHHc---CCCHHHHHHHHHHHHhhCCHHHH-HHHHHHHc---CC
Confidence            3344445556655555555555555553332222 22222   23444434444444444433222 22222222   23


Q ss_pred             cHHHHHHHHHHHHhcCCHHHHHHHhhCCCCCchhhHHHHHHHHHhcC
Q 039362           97 DLFISNSLIHMYGSCGDIVYAREVFDGMPTKMSVSWNSMLDGYAKCG  143 (440)
Q Consensus        97 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~  143 (440)
                      +..+-...+.++.+.|+.+....+.+.+.+++...-...+.++.+.+
T Consensus        89 ~~~vr~~a~~aL~~~~~~~~~~~L~~~l~d~~~~vr~~a~~aL~~~~  135 (201)
T 3ltj_A           89 DGWVRQSAAVALGQIGDERAVEPLIKALKDEDWFVRIAAAFALGEIG  135 (201)
T ss_dssp             SHHHHHHHHHHHHHHCCGGGHHHHHHHTTCSSHHHHHHHHHHHHHHT
T ss_pred             CHHHHHHHHHHHHHhCcHHHHHHHHHHHcCCCHHHHHHHHHHHHHhC
Confidence            44444455555555554433333333333334333333333333333

>4b4t_R RPN7, 26S proteasome regulatory subunit RPN7; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=87.50  E-value=5.9  Score=35.24  Aligned_cols=95  Identities=8%  Similarity=-0.136  Sum_probs=49.7

Q ss_pred             hHHHHHHHHHcCCChHHHHHHHHHHhhc--CCCCCcchHHHHHHHHHhcCCHHHHHHHHhcC----CCCccHhHHH----
Q 039362          300 TFLGLLSACAHGGLVMEAWYFFKSLGKR--GMVPKSEHYACMVDALSRAGQVTEAYEFICQM----PLEPTASMLG----  369 (440)
Q Consensus       300 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~----~~~p~~~~~~----  369 (440)
                      +...+...+.+.|+++.|.+.+.++...  +...-...+...++.+...+++..+...++++    ...++....+    
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            4555666666667777777777766654  21222334555666666666666666666655    1112221111    


Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHhc
Q 039362          370 SLLTGCMNHGKLDLAEIVGKKLVEL  394 (440)
Q Consensus       370 ~l~~~~~~~g~~~~a~~~~~~~~~~  394 (440)
                      .-+..+...+++..|...|-.+...
T Consensus       213 ~~gl~~l~~r~f~~Aa~~f~e~~~t  237 (429)
T 4b4t_R          213 YYGIHCLAVRNFKEAAKLLVDSLAT  237 (429)
T ss_dssp             HHHHGGGGTSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhChHHHHHHHHHHHhcc
Confidence            1112233456666666666555443

>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=87.44  E-value=4.1  Score=28.93  Aligned_cols=46  Identities=15%  Similarity=0.148  Sum_probs=26.7

Q ss_pred             HHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 039362          179 ALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDK  224 (440)
Q Consensus       179 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  224 (440)
                      ..+-++.+...++.|++......+++|.+.+++..|.++++-++.+
T Consensus        72 lrrglN~l~~~DlVPeP~Ii~AALrAcRRvNDfalAVR~lE~vK~K  117 (152)
T 2y69_E           72 LRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK  117 (152)
T ss_dssp             HHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHh
Confidence            4444455555555666666666666666666666666666655544

>2wpv_A GET4, UPF0363 protein YOR164C; golgi-ER trafficking, tail-anchored protein, protein binding GET4; 1.99A {Saccharomyces cerevisiae} PDB: 3lku_A

Probab=85.87  E-value=15  Score=30.89  Aligned_cols=124  Identities=11%  Similarity=0.019  Sum_probs=62.7

Q ss_pred             HHHHHHHHHHccCChhhHHHHHHHHHHcCCCCCcchHHHHHHHhhchhcHHH----HHHHHHHHHHcCCCCcHHHHHHHH
Q 039362           30 YWNTVIRGYSKSKNPNKSISLFVKMLRAGVSPDHLTYPFLAKASGRLAKREL----AVAVHAQIAKTGYESDLFISNSLI  105 (440)
Q Consensus        30 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~----a~~~~~~~~~~~~~~~~~~~~~l~  105 (440)
                      .|.++..-|.+.+++++|++++..-..               .+.+.|+...    +.-+++-..+.+.+++......++
T Consensus        35 ~~Rtl~~Ry~~~~~~~eAidlL~~ga~---------------~ll~~~Q~~sa~DLa~llvev~~~~~~~~~~~~~~rl~   99 (312)
T 2wpv_A           35 TLRTIANRYVRSKSYEHAIELISQGAL---------------SFLKAKQGGSGTDLIFYLLEVYDLAEVKVDDISVARLV   99 (312)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHH---------------HHHHTTCHHHHHHHHHHHHHHHHHTTCCCSHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHH---------------HHHHCCCcchHHHHHHHHHHHHHHcCCCCCHHHHHHHH
Confidence            566666667777777777777655322               1222333333    333344455556777766666666


Q ss_pred             HHHHhcCC--------HHHHHHHhhCC---CCCchhhHHHHHHHHHhcCChHHHHHHHhhCCCCchhhHHHHHH
Q 039362          106 HMYGSCGD--------IVYAREVFDGM---PTKMSVSWNSMLDGYAKCGEMNMARQVFELMPERNVVSWSALID  168 (440)
Q Consensus       106 ~~~~~~g~--------~~~a~~~~~~~---~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~  168 (440)
                      ..+.....        +..|+..-.+.   ...++.....+...|.+.|++.+|+..|-.-...+...+..++.
T Consensus       100 ~l~~~~p~~~~~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~~a~~~~~e~~~~~A~~H~i~~~~~s~~~~a~~l~  173 (312)
T 2wpv_A          100 RLIAELDPSEPNLKDVITGMNNWSIKFSEYKFGDPYLHNTIGSKLLEGDFVYEAERYFMLGTHDSMIKYVDLLW  173 (312)
T ss_dssp             HHHTTCCTTCTTHHHHHHHHHHHHHHTSSCTTCCHHHHHHHHHHHHHTTCHHHHHHHHHTSCHHHHHHHHHHHH
T ss_pred             HHHHHCCCCCchHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHhhcCCHHHHHHHHHhCCCccHHHHHHHHH
Confidence            65544321        12222222222   11244555556666666666666666555332223444444443

>3ltj_A Alpharep-4; protein engineering, heat-like repeat, protein binding; 1.80A {Synthetic}

Probab=85.25  E-value=11  Score=28.95  Aligned_cols=17  Identities=6%  Similarity=-0.101  Sum_probs=6.4

Q ss_pred             CchhhHHHHHHHHHhcC
Q 039362          158 RNVVSWSALIDGYVKCG  174 (440)
Q Consensus       158 ~~~~~~~~l~~~~~~~~  174 (440)
                      ++...-...+.++.+.+
T Consensus        88 ~~~~vr~~a~~aL~~~~  104 (201)
T 3ltj_A           88 EDGWVRQSAAVALGQIG  104 (201)
T ss_dssp             SSHHHHHHHHHHHHHHC
T ss_pred             CCHHHHHHHHHHHHHhC
Confidence            33333333333333333

>4a1g_A Mitotic checkpoint serine/threonine-protein kinas; cell cycle, transferase, spindle assembly checkpoint, mitosi repeat, KNL1, KMN network; 2.60A {Homo sapiens} PDB: 2lah_A

Probab=84.64  E-value=9.5  Score=27.89  Aligned_cols=48  Identities=6%  Similarity=-0.092  Sum_probs=27.6

Q ss_pred             HHHHHHHHHhcC--CCCCchHHHHHHHHHhccChHHHHHHHHHHHhcCCc
Q 039362          384 AEIVGKKLVELQ--PDHDGRYVGLSNVYAIFKRWDEARTTREAMETRGVK  431 (440)
Q Consensus       384 a~~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  431 (440)
                      +..+|..+...+  ......|...+..+...|++++|.++++.-++.+-+
T Consensus        84 p~~if~~L~~~~IG~~~AlfYe~wA~~lE~~g~~~~A~~Vy~~Gi~~~A~  133 (152)
T 4a1g_A           84 LHQFFEFLYNHGIGTLSSPLYIAWAGHLEAQGELQHASAVLQRGIQNQAE  133 (152)
T ss_dssp             HHHHHHHHHTTTTTTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCB
T ss_pred             HHHHHHHHHHCCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCc
Confidence            556666665544  333334566666666666666666666665555443

>2wvi_A Mitotic checkpoint serine/threonine-protein kinase BUB1 beta; tumor suppressor, TPR, apoptosis, cell division, cell cycle, kinetochore, transferase; 1.80A {Homo sapiens} PDB: 3si5_A

Probab=81.98  E-value=13  Score=27.65  Aligned_cols=30  Identities=7%  Similarity=-0.005  Sum_probs=17.6

Q ss_pred             hHHHHHHHHHHhcCChhHHHHHHHHHHhcC
Q 039362          366 SMLGSLLTGCMNHGKLDLAEIVGKKLVELQ  395 (440)
Q Consensus       366 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  395 (440)
                      ..|......+-..|++.+|.++|+..++.+
T Consensus        97 lfY~~wA~~lE~~~~~~~A~~Iy~~Gi~~~  126 (164)
T 2wvi_A           97 QFYISWAEEYEARENFRKADAIFQEGIQQK  126 (164)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHcC
Confidence            444555555556666666666666666554

>1oyz_A Hypothetical protein YIBA; structural genomics, PSI, protein structure initiative, northeast structural genomics consortium, NESG; 2.10A {Escherichia coli} SCOP: a.118.1.16

Probab=81.49  E-value=20  Score=29.24  Aligned_cols=58  Identities=9%  Similarity=0.080  Sum_probs=24.3

Q ss_pred             chhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCCchhhHHHHHHHHHhcCChHHHHHHHHHHHH
Q 039362          229 TLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQSDVLIWNAMIGGLAMHGFVKESLELFTEMQI  291 (440)
Q Consensus       229 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~  291 (440)
                      +..+-...+.++.+.|+......+...+.  .++  .....+.++.+.|.. .+...+..+..
T Consensus       205 ~~~vR~~A~~aL~~~~~~~~~~~L~~~l~--d~~--vr~~a~~aL~~i~~~-~~~~~L~~~l~  262 (280)
T 1oyz_A          205 NEEVRIEAIIGLSYRKDKRVLSVLCDELK--KNT--VYDDIIEAAGELGDK-TLLPVLDTMLY  262 (280)
T ss_dssp             CHHHHHHHHHHHHHTTCGGGHHHHHHHHT--SSS--CCHHHHHHHHHHCCG-GGHHHHHHHHT
T ss_pred             CHHHHHHHHHHHHHhCCHhhHHHHHHHhc--Ccc--HHHHHHHHHHhcCch-hhhHHHHHHHh
Confidence            34444444455555554332222222222  232  223334455555552 45555555544

>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=81.12  E-value=27  Score=30.44  Aligned_cols=157  Identities=15%  Similarity=0.070  Sum_probs=81.1

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHhhCCCC--------CchhhHHHHHHHHHhcC-ChHHHHHHHhhCCC---CchhhH----
Q 039362          100 ISNSLIHMYGSCGDIVYAREVFDGMPT--------KMSVSWNSMLDGYAKCG-EMNMARQVFELMPE---RNVVSW----  163 (440)
Q Consensus       100 ~~~~l~~~~~~~g~~~~a~~~~~~~~~--------~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~---~~~~~~----  163 (440)
                      ....|...|.+.|+.++..+++.....        ........++..+.... ..+.-.++.....+   .+-.+|    
T Consensus        21 ~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~kak~~k~v~~l~~~~~~~~~~~~~~~~~~~~~~~~a~~~~r~flr~~  100 (394)
T 3txn_A           21 GILQQGELYKQEGKAKELADLIKVTRPFLSSISKAKAAKLVRSLVDMFLDMDAGTGIEVQLCKDCIEWAKQEKRTFLRQS  100 (394)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHTTTGGGGSCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhchHHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344566666666666666666655543        11223444455444432 22222233322221   111222    


Q ss_pred             --HHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCH-----HHHHHHHHHHHhcCChHHHHHHHHHHHHcC--CCCchhhH-
Q 039362          164 --SALIDGYVKCGDYKEALVIFEEMRDVGSKANE-----VTLVSVLCACAHLGALDQGRMMLRYMIDKG--LSLTLPLQ-  233 (440)
Q Consensus       164 --~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~-  233 (440)
                        ..++..|...|++.+|.+++.++.+.--..|.     ..+..-+..|...+++.++...+.......  +.+++.+. 
T Consensus       101 l~~kL~~l~~~~~~y~~a~~~i~~l~~~~~~~dd~~~llev~lle~~~~~~~~n~~k~k~~l~~a~~~~~ai~~~p~i~a  180 (394)
T 3txn_A          101 LEARLIALYFDTALYTEALALGAQLLRELKKLDDKNLLVEVQLLESKTYHALSNLPKARAALTSARTTANAIYCPPKVQG  180 (394)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTSSCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHH
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHHHHHhccccchhHHHHHHHHHHHHHHhccHHHHHHHHHHHHhhhccCCCCHHHHH
Confidence              25677788888888888888777553112121     234445566677788888877777664321  22333222 


Q ss_pred             ---HHHHHHHH-hcCCHHHHHHHHhhh
Q 039362          234 ---TSLIDMYA-KCGAIKEALIVFHGV  256 (440)
Q Consensus       234 ---~~l~~~~~-~~g~~~~A~~~~~~~  256 (440)
                         ..-+..+. ..+++..|...|-+.
T Consensus       181 ~i~~~~Gi~~l~~~rdyk~A~~~F~ea  207 (394)
T 3txn_A          181 ALDLQSGILHAADERDFKTAFSYFYEA  207 (394)
T ss_dssp             HHHHHHHHHHHHTTSCHHHHHHHHHHH
T ss_pred             HHHHHhhHHHHHhccCHHHHHHHHHHH
Confidence               12233345 677777776666554

>4b4t_R RPN7, 26S proteasome regulatory subunit RPN7; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=80.42  E-value=13  Score=32.94  Aligned_cols=61  Identities=11%  Similarity=0.071  Sum_probs=31.3

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHcCCC--CchhhHHHHHHHHHhcCCHHHHHHHHhhhh
Q 039362          197 TLVSVLCACAHLGALDQGRMMLRYMIDKGLS--LTLPLQTSLIDMYAKCGAIKEALIVFHGVE  257 (440)
Q Consensus       197 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  257 (440)
                      +...+...+.+.|+++.|.+.+.++......  .-...+...+..+...+++..+...+.++.
T Consensus       133 ~~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~kid~~l~~irl~l~~~d~~~~~~~~~ka~  195 (429)
T 4b4t_R          133 AWINLGEYYAQIGDKDNAEKTLGKSLSKAISTGAKIDVMLTIARLGFFYNDQLYVKEKLEAVN  195 (429)
T ss_dssp             CCHHHHHHHHHHCCCTTHHHHHHHHHHHHTCCCSHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHH
Confidence            3444555566666666666666665543211  122344444555555555555555555543

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

ID	Length	Definition	E-value
Query	440
d1w3ba_	388	a.118.8.1 (A:) O-GlcNAc transferase p110 subunit,	2e-04
d1w3ba_	388	a.118.8.1 (A:) O-GlcNAc transferase p110 subunit,	7e-04

>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]} Length = 388

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: O-GlcNAc transferase p110 subunit, OGT
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 40.8 bits (94), Expect = 2e-04
 Identities = 43/381 (11%), Positives = 111/381 (29%), Gaps = 15/381 (3%)

Query: 38  YSKSKNPNKSISLFVKMLRAGVSPDHL-TYPFLAKASGRLAKRELAVAVHAQIAKTG--- 93
             ++ +   +    +++ R    PD+      L+    +  + + +        K     
Sbjct: 9   EYQAGDFEAAERHCMQLWRQ--EPDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQNPLL 66

Query: 94  YESDLFISNSLIHMYGSCGDIVYAREVFDGMPTKMSVSWNSMLDGYAKCGEMNMARQVFE 153
            E+   + N           I + R      P  +    N      A        +    
Sbjct: 67  AEAYSNLGNVYKERGQLQEAIEHYRHALRLKPDFIDGYINLAAALVAAGDMEGAVQAYVS 126

Query: 154 LMPERNVVSWSALIDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVL-CACAHLGALD 212
            +     +       G +     +        ++ + ++ N     S L C     G + 
Sbjct: 127 ALQYNPDLYCVRSDLGNLLKALGRLEEAKACYLKAIETQPNFAVAWSNLGCVFNAQGEIW 186

Query: 213 QGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVF-HGVEKHQSDVLIWNAMIG 271
                    +    +  L    +L ++  +      A+  +   +    +  ++   +  
Sbjct: 187 LAIHHFEKAVTLDPNF-LDAYINLGNVLKEARIFDRAVAAYLRALSLSPNHAVVHGNLAC 245

Query: 272 GLAMHGFVKESLELFTEMQIVGITPD-EITFLGLLSACAHGGLVMEAWYFFKSLGKRGMV 330
                G +  +++ +   + + + P     +  L +A    G V EA   + +  +    
Sbjct: 246 VYYEQGLIDLAIDTYR--RAIELQPHFPDAYCNLANALKEKGSVAEAEDCYNTALRLCPT 303

Query: 331 PKSEHYACMVDALSRAGQVTEAYEFICQ-MPLEPT-ASMLGSLLTGCMNHGKLDLAEIVG 388
                   + +     G + EA     + + + P  A+   +L +     GKL  A +  
Sbjct: 304 HADSLN-NLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHY 362

Query: 389 KKLVELQPDHDGRYVGLSNVY 409
           K+ + + P     Y  + N  
Sbjct: 363 KEAIRISPTFADAYSNMGNTL 383

>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]} Length = 388

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: O-GlcNAc transferase p110 subunit, OGT
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 39.3 bits (90), Expect = 7e-04
 Identities = 31/188 (16%), Positives = 64/188 (34%), Gaps = 7/188 (3%)

Query: 236 LIDMYAKCGAIKEALIVFH-GVEKHQSDVLIWNAMIGGLAMHGFVKESLELFTEMQIVGI 294
           L  ++   G I  A+  F   V    + +  +  +   L        ++  +     +  
Sbjct: 175 LGCVFNAQGEIWLAIHHFEKAVTLDPNFLDAYINLGNVLKEARIFDRAVAAYLRALSLSP 234

Query: 295 TPDEITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKS-EHYACMVDALSRAGQVTEAY 353
               +    L       GL+  A   ++   +  + P   + Y  + +AL   G V EA 
Sbjct: 235 NHAVV-HGNLACVYYEQGLIDLAIDTYRRAIE--LQPHFPDAYCNLANALKEKGSVAEAE 291

Query: 354 EFICQ--MPLEPTASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAI 411
           +            A  L +L       G ++ A  + +K +E+ P+    +  L++V   
Sbjct: 292 DCYNTALRLCPTHADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQ 351

Query: 412 FKRWDEAR 419
             +  EA 
Sbjct: 352 QGKLQEAL 359

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	440
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.96
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.95
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.75
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.75
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.47
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.43
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.43
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.4
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.39
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	99.38
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.37
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.33
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.31
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	99.26
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.91
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.88
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.86
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.85
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.85
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.84
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.83
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.82
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.8
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.77
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.69
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.67
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	98.66
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	98.65
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.62
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	98.55
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	98.52
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.5
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.5
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.47
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	98.4
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	98.39
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.39
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	98.38
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.29
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	98.28
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	98.26
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	98.25
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	98.24
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	98.23
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	98.12
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	98.07
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	98.01
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	97.99
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.96
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	97.95
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	97.93
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	97.85
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	97.67
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.59
d1qsaa1	450	70 KDa soluble lytic transglycosylase (SLT70), sup	97.27
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	97.15
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	96.71
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	96.49
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	96.38
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	96.21
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	95.13
d1qsaa1	450	70 KDa soluble lytic transglycosylase (SLT70), sup	92.58
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	91.41
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	91.17

>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=99.96  E-value=8.9e-26  Score=200.39  Aligned_cols=374  Identities=12%  Similarity=0.087  Sum_probs=275.5

Q ss_pred             HHHHHccCChhhHHHHHHHHHHcCCCCCcchHHHHHHHhhchhcHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhcCCH
Q 039362           35 IRGYSKSKNPNKSISLFVKMLRAGVSPDHLTYPFLAKASGRLAKRELAVAVHAQIAKTGYESDLFISNSLIHMYGSCGDI  114 (440)
Q Consensus        35 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  114 (440)
                      ...+.+.|++++|++.++++.+.. +-+...+..+..++.+.|++++|...++.+++..+. +..++..+..+|.+.|++
T Consensus         6 a~~~~~~G~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~-~~~a~~~l~~~~~~~g~~   83 (388)
T d1w3ba_           6 AHREYQAGDFEAAERHCMQLWRQE-PDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQNPL-LAEAYSNLGNVYKERGQL   83 (388)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHhhhhccc
Confidence            344556667777777777666542 223455666666666667777777777766665433 455666666667777777


Q ss_pred             HHHHHHhhCCCCC---chhhHHHHHHHHHhcCChHHHHHHHhhCC---CCchhhHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 039362          115 VYAREVFDGMPTK---MSVSWNSMLDGYAKCGEMNMARQVFELMP---ERNVVSWSALIDGYVKCGDYKEALVIFEEMRD  188 (440)
Q Consensus       115 ~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  188 (440)
                      ++|...+......   +...+..........+....+........   .................+....+...+.....
T Consensus        84 ~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  163 (388)
T d1w3ba_          84 QEAIEHYRHALRLKPDFIDGYINLAAALVAAGDMEGAVQAYVSALQYNPDLYCVRSDLGNLLKALGRLEEAKACYLKAIE  163 (388)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHCTTCTHHHHHHHHHHHTTSCHHHHHHHHHHHHH
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccchhhhhHHHHHHhhc
Confidence            7776666655431   22223333333333344433333333222   23444555556667777888888888887766


Q ss_pred             cCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCC-chhhHH
Q 039362          189 VGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQS-DVLIWN  267 (440)
Q Consensus       189 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~  267 (440)
                      .. +.+...+..+...+...|++++|...++...+.. +.+...+..+..++...|++++|...+.+.....| +...+.
T Consensus       164 ~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~  241 (388)
T d1w3ba_         164 TQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLD-PNFLDAYINLGNVLKEARIFDRAVAAYLRALSLSPNHAVVHG  241 (388)
T ss_dssp             HC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHCTTCHHHHH
T ss_pred             cC-cchhHHHHhhcccccccCcHHHHHHHHHHHHHhC-cccHHHHHHHhhhhhccccHHHHHHHHHHhHHHhhhHHHHHH
Confidence            53 4456677777888888999999999999888776 66777888899999999999999999998877654 566778


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcC
Q 039362          268 AMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAG  347 (440)
Q Consensus       268 ~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  347 (440)
                      .+...+.+.|++++|+..|++..+.. +-+..++..+...+...|++++|...++...... +.+...+..+...+...|
T Consensus       242 ~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~  319 (388)
T d1w3ba_         242 NLACVYYEQGLIDLAIDTYRRAIELQ-PHFPDAYCNLANALKEKGSVAEAEDCYNTALRLC-PTHADSLNNLANIKREQG  319 (388)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHTC-SSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTT
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHhhhccC-CccchhhhHHHHHHHHCC
Confidence            88889999999999999999988764 4456678888889999999999999999888754 346677888889999999


Q ss_pred             CHHHHHHHHhcC-CCCcc-HhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCCchHHHHHHHHHhccC
Q 039362          348 QVTEAYEFICQM-PLEPT-ASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKR  414 (440)
Q Consensus       348 ~~~~a~~~~~~~-~~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  414 (440)
                      ++++|++.+++. .+.|+ ..++..++.++...|++++|+..|+++++.+|.++.++..++.+|.+.|+
T Consensus       320 ~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l~P~~~~a~~~lg~~~~~~~D  388 (388)
T d1w3ba_         320 NIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRISPTFADAYSNMGNTLKEMQD  388 (388)
T ss_dssp             CHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTCC
T ss_pred             CHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCC
Confidence            999999999987 66664 56788899999999999999999999999999999999999999988875

>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=99.95  E-value=2.6e-24  Score=190.79  Aligned_cols=356  Identities=13%  Similarity=0.079  Sum_probs=296.7

Q ss_pred             HHHHhhchhcHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhcCCHHHHHHHhhCCCC---CchhhHHHHHHHHHhcCCh
Q 039362           69 LAKASGRLAKRELAVAVHAQIAKTGYESDLFISNSLIHMYGSCGDIVYAREVFDGMPT---KMSVSWNSMLDGYAKCGEM  145 (440)
Q Consensus        69 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~  145 (440)
                      +...+.+.|++++|.+.++++.+..+. +..++..+..+|.+.|++++|...|+++.+   .+..+|..+..++.+.|++
T Consensus         5 la~~~~~~G~~~~A~~~~~~~l~~~p~-~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~l~~~~~~~g~~   83 (388)
T d1w3ba_           5 LAHREYQAGDFEAAERHCMQLWRQEPD-NTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQNPLLAEAYSNLGNVYKERGQL   83 (388)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHhhhhccc
Confidence            455677889999999999999988643 788899999999999999999999998764   3566889999999999999


Q ss_pred             HHHHHHHhhCCC---CchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHH
Q 039362          146 NMARQVFELMPE---RNVVSWSALIDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMI  222 (440)
Q Consensus       146 ~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  222 (440)
                      ++|+..+....+   .+..............+....+........... .................+....+...+....
T Consensus        84 ~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  162 (388)
T d1w3ba_          84 QEAIEHYRHALRLKPDFIDGYINLAAALVAAGDMEGAVQAYVSALQYN-PDLYCVRSDLGNLLKALGRLEEAKACYLKAI  162 (388)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHC-TTCTHHHHHHHHHHHTTSCHHHHHHHHHHHH
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccc-cccccccccccccccccchhhhhHHHHHHhh
Confidence            999999988875   233444455555556666666666666555543 3344455555666677888888888888887


Q ss_pred             HcCCCCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCC-chhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhH
Q 039362          223 DKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQS-DVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITF  301 (440)
Q Consensus       223 ~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~  301 (440)
                      ... +.+...+..+...+...|++++|...+++..+..| +...+..+...+...|++++|+..+++....+ +.+...+
T Consensus       163 ~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~  240 (388)
T d1w3ba_         163 ETQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDPNFLDAYINLGNVLKEARIFDRAVAAYLRALSLS-PNHAVVH  240 (388)
T ss_dssp             HHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHC-TTCHHHH
T ss_pred             ccC-cchhHHHHhhcccccccCcHHHHHHHHHHHHHhCcccHHHHHHHhhhhhccccHHHHHHHHHHhHHHh-hhHHHHH
Confidence            765 66778888899999999999999999999887777 46788899999999999999999999998875 5566778


Q ss_pred             HHHHHHHHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcC--CCCccHhHHHHHHHHHHhcC
Q 039362          302 LGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQM--PLEPTASMLGSLLTGCMNHG  379 (440)
Q Consensus       302 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~--~~~p~~~~~~~l~~~~~~~g  379 (440)
                      ..+...+.+.|++++|+..|+++.+.. +-+...+..+...+...|++++|.+.++..  ..+.+...+..+...+...|
T Consensus       241 ~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  319 (388)
T d1w3ba_         241 GNLACVYYEQGLIDLAIDTYRRAIELQ-PHFPDAYCNLANALKEKGSVAEAEDCYNTALRLCPTHADSLNNLANIKREQG  319 (388)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHTC-SSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTT
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHhhhccCCccchhhhHHHHHHHHCC
Confidence            888899999999999999999998854 224667888999999999999999999987  33446678888999999999


Q ss_pred             ChhHHHHHHHHHHhcCCCCCchHHHHHHHHHhccChHHHHHHHHHHHhcC
Q 039362          380 KLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEARTTREAMETRG  429 (440)
Q Consensus       380 ~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  429 (440)
                      ++++|+..++++++..|.++.++..++.+|...|++++|.+.+++.++..
T Consensus       320 ~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l~  369 (388)
T d1w3ba_         320 NIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRIS  369 (388)
T ss_dssp             CHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTTC
T ss_pred             CHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            99999999999999999999999999999999999999999999998754

>d1fcha_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.75  E-value=1.1e-16  Score=137.53  Aligned_cols=243  Identities=12%  Similarity=-0.022  Sum_probs=135.0

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhc
Q 039362          164 SALIDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKC  243 (440)
Q Consensus       164 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  243 (440)
                      -.....+.+.|++++|+..|+++.+.. +-+..++..+..++...|++++|...+.+..+.. |.+...+..++.+|...
T Consensus        23 ~~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~  100 (323)
T d1fcha_          23 FEEGLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQELLAISALRRCLELK-PDNQTALMALAVSFTNE  100 (323)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHhhhccc-ccccccccccccccccc
Confidence            345667778888888888888887764 3456677777888888888888888888887765 55667777788888888


Q ss_pred             CCHHHHHHHHhhhhhcCCchhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHH
Q 039362          244 GAIKEALIVFHGVEKHQSDVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKS  323 (440)
Q Consensus       244 g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~  323 (440)
                      |++++|.+.++.+....|+..............                   .+.......+..+...+.+.++...+.+
T Consensus       101 ~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~-------------------~~~~~~~~~~~~~~~~~~~~~a~~~~~~  161 (323)
T d1fcha_         101 SLQRQACEILRDWLRYTPAYAHLVTPAEEGAGG-------------------AGLGPSKRILGSLLSDSLFLEVKELFLA  161 (323)
T ss_dssp             TCHHHHHHHHHHHHHTSTTTGGGCC----------------------------------CTTHHHHHHHHHHHHHHHHHH
T ss_pred             ccccccccchhhHHHhccchHHHHHhhhhhhhh-------------------cccccchhhHHHHHHhhHHHHHHHHHHH
Confidence            888888888887776554322110000000000                   0000000001111222334444444444


Q ss_pred             HhhcCC-CCCcchHHHHHHHHHhcCCHHHHHHHHhcC-CCCc-cHhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCCc
Q 039362          324 LGKRGM-VPKSEHYACMVDALSRAGQVTEAYEFICQM-PLEP-TASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDG  400 (440)
Q Consensus       324 ~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~  400 (440)
                      +.+... .++...+..+...+...|++++|+..+++. ...| +...|..++..+...|++++|++.++++++.+|.++.
T Consensus       162 al~~~p~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~  241 (323)
T d1fcha_         162 AVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVRPNDYLLWNKLGATLANGNQSEEAVAAYRRALELQPGYIR  241 (323)
T ss_dssp             HHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHH
T ss_pred             HHHHhhcccccccchhhHHHHHHHHHHhhhhcccccccccccccccchhhhhhcccccccchhHHHHHHHHHHHhhccHH
Confidence            444311 112334444555555555555555555554 2223 2344555555555555555555555555555555555


Q ss_pred             hHHHHHHHHHhccChHHHHHHHHHHHh
Q 039362          401 RYVGLSNVYAIFKRWDEARTTREAMET  427 (440)
Q Consensus       401 ~~~~l~~~~~~~g~~~~A~~~~~~~~~  427 (440)
                      ++..++.+|.+.|++++|.+.|++.++
T Consensus       242 a~~~lg~~~~~~g~~~~A~~~~~~al~  268 (323)
T d1fcha_         242 SRYNLGISCINLGAHREAVEHFLEALN  268 (323)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            555555555555555555555555554

>d1fcha_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.75  E-value=4.5e-16  Score=133.66  Aligned_cols=268  Identities=15%  Similarity=0.069  Sum_probs=193.1

Q ss_pred             HHHHHHHHhcCChHHHHHHHhhCCC--C-chhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcC
Q 039362          133 NSMLDGYAKCGEMNMARQVFELMPE--R-NVVSWSALIDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLG  209 (440)
Q Consensus       133 ~~l~~~~~~~~~~~~a~~~~~~~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  209 (440)
                      -.....+.+.|++++|+..|+++.+  | +..+|..+..++...|++++|...+.+..+.. +-+...+..+..++...|
T Consensus        23 ~~~g~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~  101 (323)
T d1fcha_          23 FEEGLRRLQEGDLPNAVLLFEAAVQQDPKHMEAWQYLGTTQAENEQELLAISALRRCLELK-PDNQTALMALAVSFTNES  101 (323)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCChHHHHHHHHhhhccc-cccccccccccccccccc
Confidence            3466778999999999999999875  3 46789999999999999999999999998764 446678888889999999


Q ss_pred             ChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCCchhhHHHHHHHHHhcCChHHHHHHHHHH
Q 039362          210 ALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQSDVLIWNAMIGGLAMHGFVKESLELFTEM  289 (440)
Q Consensus       210 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m  289 (440)
                      ++++|.+.++.+.... +..............                  ..+.......+..+...+.+.+|.+.+.+.
T Consensus       102 ~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~------------------~~~~~~~~~~~~~~~~~~~~~~a~~~~~~a  162 (323)
T d1fcha_         102 LQRQACEILRDWLRYT-PAYAHLVTPAEEGAG------------------GAGLGPSKRILGSLLSDSLFLEVKELFLAA  162 (323)
T ss_dssp             CHHHHHHHHHHHHHTS-TTTGGGCC---------------------------------CTTHHHHHHHHHHHHHHHHHHH
T ss_pred             cccccccchhhHHHhc-cchHHHHHhhhhhhh------------------hcccccchhhHHHHHHhhHHHHHHHHHHHH
Confidence            9999999999988764 222111110000000                  001111111222334445667788888777


Q ss_pred             HHcCC-CccHhhHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcC-CCCc-cHh
Q 039362          290 QIVGI-TPDEITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQM-PLEP-TAS  366 (440)
Q Consensus       290 ~~~~~-~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~  366 (440)
                      ..... .++...+..+...+...|++++|+..+++..... +-+...|..+...|...|++++|.+.+++. ...| +..
T Consensus       163 l~~~p~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~  241 (323)
T d1fcha_         163 VRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVR-PNDYLLWNKLGATLANGNQSEEAVAAYRRALELQPGYIR  241 (323)
T ss_dssp             HHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHH
T ss_pred             HHHhhcccccccchhhHHHHHHHHHHhhhhcccccccccc-cccccchhhhhhcccccccchhHHHHHHHHHHHhhccHH
Confidence            65431 2345567777788888899999999999888754 224667888888999999999999999887 5555 456


Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCCc-----------hHHHHHHHHHhccChHHHHHH
Q 039362          367 MLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDG-----------RYVGLSNVYAIFKRWDEARTT  421 (440)
Q Consensus       367 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~-----------~~~~l~~~~~~~g~~~~A~~~  421 (440)
                      .+..++.+|.+.|++++|+..|+++++..|.+..           .|..+..++...|+.+.+...
T Consensus       242 a~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~l~~al~~~~~~d~~~~~  307 (323)
T d1fcha_         242 SRYNLGISCINLGAHREAVEHFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALSMLGQSDAYGAA  307 (323)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC------CCCCCHHHHHHHHHHHHHHTCGGGHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhCCcChhhhhhhHHHHHHHHHHHHHHHHHcCCHHHHHHH
Confidence            7888999999999999999999999998776654           345566677777777655443

>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=99.47  E-value=2.2e-12  Score=106.34  Aligned_cols=224  Identities=13%  Similarity=-0.062  Sum_probs=148.8

Q ss_pred             CHHHHHHHHHHHHhcCCCC---CHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHH
Q 039362          175 DYKEALVIFEEMRDVGSKA---NEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALI  251 (440)
Q Consensus       175 ~~~~a~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  251 (440)
                      +.+.++.-+++........   ...++..+..+|.+.|++++|...|++.++.. |.++.++..+..+|...|++++|+.
T Consensus        14 ~~e~al~~~~e~l~~~~~~~~~~a~~~~~~G~~y~~~g~~~~A~~~~~~al~l~-p~~~~a~~~lg~~~~~~g~~~~A~~   92 (259)
T d1xnfa_          14 QQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDAAYE   92 (259)
T ss_dssp             HHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHhhccC-CCCHHHHhhhchHHHHHHHHHHhhh
Confidence            4455666666665542111   12356667778888899999999999888876 6778888888999999999999999


Q ss_pred             HHhhhhhcCCc-hhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHhhcCCC
Q 039362          252 VFHGVEKHQSD-VLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKRGMV  330 (440)
Q Consensus       252 ~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  330 (440)
                      .|+++.+..|+ ..++..+...+...|++++|...|+...+.. +.+......+..++.+.+..+.+..+........  
T Consensus        93 ~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--  169 (259)
T d1xnfa_          93 AFDSVLELDPTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQDD-PNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKSD--  169 (259)
T ss_dssp             HHHHHHHHCTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHSC--
T ss_pred             hhhHHHHHHhhhhhhHHHHHHHHHHHhhHHHHHHHHHHHHhhc-cccHHHHHHHHHHHHHhhhHHHHHHHHHHhhccc--
Confidence            99998887774 6678888888889999999999999888764 3344444444444455555555555555544422  


Q ss_pred             CCcchHHHHHHHHHhcCC----HHHHHHHHhcC-CCCcc-HhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCCchHH
Q 039362          331 PKSEHYACMVDALSRAGQ----VTEAYEFICQM-PLEPT-ASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYV  403 (440)
Q Consensus       331 ~~~~~~~~l~~~~~~~~~----~~~a~~~~~~~-~~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~  403 (440)
                      ++...+. ++..+.....    .+.+...+... ...|+ ..++..+...+...|++++|...|+++++.+|.+...+.
T Consensus       170 ~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~  247 (259)
T d1xnfa_         170 KEQWGWN-IVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANNVHNFVEHR  247 (259)
T ss_dssp             CCSTHHH-HHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCTTCHHHH
T ss_pred             hhhhhhh-HHHHHHHHHHHHHHHHHHHHHHHHhhhcCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCHHHHH
Confidence            2222222 2222222222    22333333222 22333 356777889999999999999999999999998865443

>d1hz4a_ a.118.8.2 (A:) Transcription factor MalT domain III {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Transcription factor MalT domain III
domain: Transcription factor MalT domain III
species: Escherichia coli [TaxId: 562]

Probab=99.43  E-value=8.3e-11  Score=101.56  Aligned_cols=260  Identities=13%  Similarity=0.014  Sum_probs=120.7

Q ss_pred             HHHHHhcCChHHHHHHHhhCCC--Cc------hhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCC-CCC----HHHHHHHH
Q 039362          136 LDGYAKCGEMNMARQVFELMPE--RN------VVSWSALIDGYVKCGDYKEALVIFEEMRDVGS-KAN----EVTLVSVL  202 (440)
Q Consensus       136 ~~~~~~~~~~~~a~~~~~~~~~--~~------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~----~~~~~~l~  202 (440)
                      ...+...|++++|++++++..+  |+      ...+..+..++...|++++|...+++...... .++    ...+..+.
T Consensus        19 A~~~~~~g~~~~A~~~~~~aL~~~~~~~~~~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~   98 (366)
T d1hz4a_          19 AQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQS   98 (366)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHhhCcCCCcHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHHHHHHHHH
Confidence            3445566666666666655432  11      12444555566666666666666665533210 011    12333444


Q ss_pred             HHHHhcCChHHHHHHHHHHHHc----CCCCc---hhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCC------chhhHHHH
Q 039362          203 CACAHLGALDQGRMMLRYMIDK----GLSLT---LPLQTSLIDMYAKCGAIKEALIVFHGVEKHQS------DVLIWNAM  269 (440)
Q Consensus       203 ~~~~~~~~~~~a~~~~~~~~~~----~~~~~---~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~------~~~~~~~l  269 (440)
                      ..+...|++..+...+......    ..+..   ...+..+...+...|+++.+...+.......+      ....+...
T Consensus        99 ~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~  178 (366)
T d1hz4a_          99 EILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAML  178 (366)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHHHHHH
Confidence            4555556666666655554321    11111   12333445555556666666665555443211      12233334


Q ss_pred             HHHHHhcCChHHHHHHHHHHHHcC----CCcc--HhhHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCC---cchHHHHH
Q 039362          270 IGGLAMHGFVKESLELFTEMQIVG----ITPD--EITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPK---SEHYACMV  340 (440)
Q Consensus       270 ~~~~~~~~~~~~a~~~~~~m~~~~----~~p~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~  340 (440)
                      ...+...++...+...+.+.....    ..+.  ...+..+...+...|+++.|...+..........+   ...+..+.
T Consensus       179 ~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la  258 (366)
T d1hz4a_         179 IQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIA  258 (366)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHH
T ss_pred             HHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhccccchHHHHHHHHHH
Confidence            444555555555555555443211    0111  01233334444455556666655555544321111   11233345


Q ss_pred             HHHHhcCCHHHHHHHHhcC-------CCCcc-HhHHHHHHHHHHhcCChhHHHHHHHHHHhcC
Q 039362          341 DALSRAGQVTEAYEFICQM-------PLEPT-ASMLGSLLTGCMNHGKLDLAEIVGKKLVELQ  395 (440)
Q Consensus       341 ~~~~~~~~~~~a~~~~~~~-------~~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  395 (440)
                      ..+...|++++|...+++.       +..|+ ...+..+...+...|++++|.+.+++++++.
T Consensus       259 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~Al~l~  321 (366)
T d1hz4a_         259 RAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALKLA  321 (366)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHh
Confidence            5555556655555555543       22222 2344455555555666666666666555543

>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=99.43  E-value=1.3e-11  Score=104.38  Aligned_cols=129  Identities=7%  Similarity=0.010  Sum_probs=65.3

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcC-ChHHHHHHHHHHHHcCCCCchhhHHHHHHHH
Q 039362          162 SWSALIDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLG-ALDQGRMMLRYMIDKGLSLTLPLQTSLIDMY  240 (440)
Q Consensus       162 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  240 (440)
                      .++.+...+.+.+.+++|+++++++++.+ +-+...|.....++...| ++++|...++.+.+.. +.+..+|..+..++
T Consensus        45 a~~~~~~~~~~~e~~~~Al~~~~~ai~ln-P~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~-p~~~~a~~~~~~~~  122 (315)
T d2h6fa1          45 VYDYFRAVLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHRRVLV  122 (315)
T ss_dssp             HHHHHHHHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCchHHHHHHHHHHHHHC-CCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHH-HhhhhHHHHHhHHH
Confidence            34444445555555555555555555542 223334444444444443 3555555555555544 44445555555555


Q ss_pred             HhcCCHHHHHHHHhhhhhcCC-chhhHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 039362          241 AKCGAIKEALIVFHGVEKHQS-DVLIWNAMIGGLAMHGFVKESLELFTEMQIV  292 (440)
Q Consensus       241 ~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~  292 (440)
                      .+.|++++|+..+.++.+..| +...|..+...+...|++++|++.++++.+.
T Consensus       123 ~~l~~~~eAl~~~~kal~~dp~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~  175 (315)
T d2h6fa1         123 EWLRDPSQELEFIADILNQDAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKE  175 (315)
T ss_dssp             HHHTCCTTHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHH
T ss_pred             HhhccHHHHHHHHhhhhhhhhcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            555555555555555554443 3444555555555555555555555555544

>d1hz4a_ a.118.8.2 (A:) Transcription factor MalT domain III {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Transcription factor MalT domain III
domain: Transcription factor MalT domain III
species: Escherichia coli [TaxId: 562]

Probab=99.40  E-value=8.3e-11  Score=101.58  Aligned_cols=259  Identities=11%  Similarity=-0.024  Sum_probs=143.9

Q ss_pred             HHHHHHHHHhcCCHHHHHHHhhCCCC--Cc------hhhHHHHHHHHHhcCChHHHHHHHhhCCC-----Cc----hhhH
Q 039362          101 SNSLIHMYGSCGDIVYAREVFDGMPT--KM------SVSWNSMLDGYAKCGEMNMARQVFELMPE-----RN----VVSW  163 (440)
Q Consensus       101 ~~~l~~~~~~~g~~~~a~~~~~~~~~--~~------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~----~~~~  163 (440)
                      .......+...|++++|.+.+++..+  |+      ...+..+..++...|++++|...|++..+     ++    ...+
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            33344556667777777777665432  11      12455566667777777777777766543     11    2344


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhc----CCCCC---HHHHHHHHHHHHhcCChHHHHHHHHHHHHcCC----CCchhh
Q 039362          164 SALIDGYVKCGDYKEALVIFEEMRDV----GSKAN---EVTLVSVLCACAHLGALDQGRMMLRYMIDKGL----SLTLPL  232 (440)
Q Consensus       164 ~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~----~~~~~~  232 (440)
                      ..+...+...|++..+...+......    +....   ...+..+...+...|+++.+...+........    ......
T Consensus        95 ~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  174 (366)
T d1hz4a_          95 IQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQC  174 (366)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHH
Confidence            55556666777777777776665321    11111   12334455566667777777777766654321    122233


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHhhhhhc----CC----chhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCc---cHhhH
Q 039362          233 QTSLIDMYAKCGAIKEALIVFHGVEKH----QS----DVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITP---DEITF  301 (440)
Q Consensus       233 ~~~l~~~~~~~g~~~~A~~~~~~~~~~----~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p---~~~~~  301 (440)
                      +......+...++...+...+......    ..    ....+..+...+...|++++|...++.........   ....+
T Consensus       175 ~~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  254 (366)
T d1hz4a_         175 LAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQW  254 (366)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHH
T ss_pred             HHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhccccchHHHHHH
Confidence            444555666667777766666654432    11    12234445556666777777777776654332111   12234


Q ss_pred             HHHHHHHHcCCChHHHHHHHHHHhhc----CCCCC-cchHHHHHHHHHhcCCHHHHHHHHhcC
Q 039362          302 LGLLSACAHGGLVMEAWYFFKSLGKR----GMVPK-SEHYACMVDALSRAGQVTEAYEFICQM  359 (440)
Q Consensus       302 ~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~  359 (440)
                      ..+..++...|++++|...++.+...    +..|+ ...+..+...|...|++++|.+.+++.
T Consensus       255 ~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~A  317 (366)
T d1hz4a_         255 RNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDA  317 (366)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            44566666777777777777766532    22222 234556666777777777777776654

>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=99.39  E-value=6.6e-11  Score=99.93  Aligned_cols=193  Identities=9%  Similarity=-0.025  Sum_probs=139.4

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHhhCCC--C-chhhHHHHHHHHHhcC-CHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHH
Q 039362          131 SWNSMLDGYAKCGEMNMARQVFELMPE--R-NVVSWSALIDGYVKCG-DYKEALVIFEEMRDVGSKANEVTLVSVLCACA  206 (440)
Q Consensus       131 ~~~~l~~~~~~~~~~~~a~~~~~~~~~--~-~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  206 (440)
                      .++.+...+.+.+.+++|+++++++.+  | +..+|+....++...| ++++|+..+++..+.. +-+..+|..+..++.
T Consensus        45 a~~~~~~~~~~~e~~~~Al~~~~~ai~lnP~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~-p~~~~a~~~~~~~~~  123 (315)
T d2h6fa1          45 VYDYFRAVLQRDERSERAFKLTRDAIELNAANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHRRVLVE  123 (315)
T ss_dssp             HHHHHHHHHHHTCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCchHHHHHHHHHHHHHCCCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHH-HhhhhHHHHHhHHHH
Confidence            566667777788888888888888775  3 4556777777777765 4888888888887764 446777778888888


Q ss_pred             hcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCC-chhhHHHHHHHHHhcCC------h
Q 039362          207 HLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQS-DVLIWNAMIGGLAMHGF------V  279 (440)
Q Consensus       207 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~------~  279 (440)
                      +.|++++|+..++.+.+.. +.+...|..+..++...|++++|+..++++.+..| +...|+.+...+.+.+.      +
T Consensus       124 ~l~~~~eAl~~~~kal~~d-p~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~p~n~~a~~~r~~~l~~~~~~~~~~~~  202 (315)
T d2h6fa1         124 WLRDPSQELEFIADILNQD-AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVRNNSVWNQRYFVISNTTGYNDRAVL  202 (315)
T ss_dssp             HHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCSCSHHHH
T ss_pred             hhccHHHHHHHHhhhhhhh-hcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHHCCccHHHHHHHHHHHHHccccchhhhh
Confidence            8888888888888888776 67778888888888888888888888888887766 46677777666665554      4


Q ss_pred             HHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHhhc
Q 039362          280 KESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKR  327 (440)
Q Consensus       280 ~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  327 (440)
                      ++|++.+..+.+.. +.+...|..+...+.. ...+++...++...+.
T Consensus       203 ~~ai~~~~~al~~~-P~~~~~~~~l~~ll~~-~~~~~~~~~~~~~~~l  248 (315)
T d2h6fa1         203 EREVQYTLEMIKLV-PHNESAWNYLKGILQD-RGLSKYPNLLNQLLDL  248 (315)
T ss_dssp             HHHHHHHHHHHHHS-TTCHHHHHHHHHHHTT-TCGGGCHHHHHHHHHH
T ss_pred             HHhHHHHHHHHHhC-CCchHHHHHHHHHHHh-cChHHHHHHHHHHHHh
Confidence            67777777776653 3345556555554433 3456666666666654

>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=99.38  E-value=3e-12  Score=109.85  Aligned_cols=261  Identities=9%  Similarity=-0.063  Sum_probs=188.7

Q ss_pred             ChHHHHHHHhhCCC--Cc-hhhHHHHHH----------HHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcC-
Q 039362          144 EMNMARQVFELMPE--RN-VVSWSALID----------GYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLG-  209 (440)
Q Consensus       144 ~~~~a~~~~~~~~~--~~-~~~~~~l~~----------~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-  209 (440)
                      ..++|+++++++.+  |+ ...|+..-.          .+...|++++|+..++...... +.+...+..+..++...+ 
T Consensus        44 ~~~~al~~~~~~l~~~P~~~~a~~~r~~~l~~l~~~~~~~~~~~~~~~al~~~~~~l~~~-pk~~~~~~~~~~~~~~~~~  122 (334)
T d1dcea1          44 LDESVLELTSQILGANPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWHHRCWLLSRLPE  122 (334)
T ss_dssp             CSHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTCSS
T ss_pred             ccHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHHHHhC-CCcHHHHHHhhHHHHHhcc
Confidence            34666666666654  33 223332222          2334456889999999988764 446666666766666655 


Q ss_pred             -ChHHHHHHHHHHHHcCCCCchhhH-HHHHHHHHhcCCHHHHHHHHhhhhhcCC-chhhHHHHHHHHHhcCChHHHHHHH
Q 039362          210 -ALDQGRMMLRYMIDKGLSLTLPLQ-TSLIDMYAKCGAIKEALIVFHGVEKHQS-DVLIWNAMIGGLAMHGFVKESLELF  286 (440)
Q Consensus       210 -~~~~a~~~~~~~~~~~~~~~~~~~-~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~  286 (440)
                       +++++...++.+.+.. +++...+ ......+...+.+++|+..++.+....| +...|+.+...+.+.|++++|...+
T Consensus       123 ~~~~~a~~~~~~al~~~-~~~~~~~~~~~~~~~~~~~~~~~Al~~~~~~i~~~p~~~~a~~~l~~~~~~~~~~~~A~~~~  201 (334)
T d1dcea1         123 PNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFSNYSSWHYRSCLLPQLHPQPDSGPQG  201 (334)
T ss_dssp             CCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCCCHHHHHHHHHHHHHHSCCCCSSSCC
T ss_pred             ccHHHHHHHHHHHHhhC-chhhhhhhhHHHHHHHhccccHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhcCHHHHHHHH
Confidence             5789999999998876 4555554 4556788889999999999999988777 5778999999999999998887666


Q ss_pred             HHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcC-CCCcc-
Q 039362          287 TEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQM-PLEPT-  364 (440)
Q Consensus       287 ~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p~-  364 (440)
                      ......  .|+..   .....+...+..+++...+....... +++...+..++..+...|+.++|...+.+. ...|+ 
T Consensus       202 ~~~~~~--~~~~~---~~~~~~~~l~~~~~a~~~~~~~l~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~  275 (334)
T d1dcea1         202 RLPENV--LLKEL---ELVQNAFFTDPNDQSAWFYHRWLLGR-AEPLFRCELSVEKSTVLQSELESCKELQELEPENKWC  275 (334)
T ss_dssp             SSCHHH--HHHHH---HHHHHHHHHCSSCSHHHHHHHHHHSC-CCCSSSCCCCHHHHHHHHHHHHHHHHHHHHCTTCHHH
T ss_pred             HHhHHh--HHHHH---HHHHHHHHhcchhHHHHHHHHHHHhC-cchhhHHHHHHHHHHHHhhHHHHHHHHHHHHhhCchH
Confidence            554432  22221   12233445566777888888777653 334555666777888889999999999887 56664 


Q ss_pred             HhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCCchHHHHHHHHHhc
Q 039362          365 ASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIF  412 (440)
Q Consensus       365 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~  412 (440)
                      ...+..++..+...|++++|+..++++++.+|.+...|..+...+.-.
T Consensus       276 ~~~~~~l~~~~~~~~~~~eA~~~~~~ai~ldP~~~~y~~~L~~~~~~e  323 (334)
T d1dcea1         276 LLTIILLMRALDPLLYEKETLQYFSTLKAVDPMRAAYLDDLRSKFLLE  323 (334)
T ss_dssp             HHHHHHHHHHHCTGGGHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCcccHHHHHHHHHHHhHh
Confidence            477888999999999999999999999999999888888887776543

>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=99.37  E-value=7.3e-12  Score=103.20  Aligned_cols=219  Identities=10%  Similarity=-0.048  Sum_probs=152.7

Q ss_pred             ChHHHHHHHHHHHHcCCCC---chhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCC-chhhHHHHHHHHHhcCChHHHHHH
Q 039362          210 ALDQGRMMLRYMIDKGLSL---TLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQS-DVLIWNAMIGGLAMHGFVKESLEL  285 (440)
Q Consensus       210 ~~~~a~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~  285 (440)
                      +.+.+...++++.......   ...++..+..+|.+.|++++|+..|++..+..| ++.+|..+..++...|++++|+..
T Consensus        14 ~~e~al~~~~e~l~~~~~~~~~~a~~~~~~G~~y~~~g~~~~A~~~~~~al~l~p~~~~a~~~lg~~~~~~g~~~~A~~~   93 (259)
T d1xnfa_          14 QQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIRPDMPEVFNYLGIYLTQAGNFDAAYEA   93 (259)
T ss_dssp             HHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHhhccCCCCHHHHhhhchHHHHHHHHHHhhhh
Confidence            3445555666666543211   234677788999999999999999999998877 578899999999999999999999


Q ss_pred             HHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcC-CCCcc
Q 039362          286 FTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQM-PLEPT  364 (440)
Q Consensus       286 ~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p~  364 (440)
                      |+++.+.. +.+..++..+..++...|++++|...|+...+... .+......+...+.+.+..+.+..+.... ...+.
T Consensus        94 ~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  171 (259)
T d1xnfa_          94 FDSVLELD-PTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQDDP-NDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKSDKE  171 (259)
T ss_dssp             HHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHSCCC
T ss_pred             hhHHHHHH-hhhhhhHHHHHHHHHHHhhHHHHHHHHHHHHhhcc-ccHHHHHHHHHHHHHhhhHHHHHHHHHHhhccchh
Confidence            99999874 34556788888999999999999999999988642 23333334444555666555554444433 11222


Q ss_pred             HhHHHHHHHHHH----hcCChhHHHHHHHHHHhcCCCCCchHHHHHHHHHhccChHHHHHHHHHHHhcCCc
Q 039362          365 ASMLGSLLTGCM----NHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEARTTREAMETRGVK  431 (440)
Q Consensus       365 ~~~~~~l~~~~~----~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  431 (440)
                      ...+. ++..+.    ..+..+.+...+.......|....++..++..|...|++++|.+.|++.+..++.
T Consensus       172 ~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~  241 (259)
T d1xnfa_         172 QWGWN-IVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANNVH  241 (259)
T ss_dssp             STHHH-HHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCT
T ss_pred             hhhhh-HHHHHHHHHHHHHHHHHHHHHHHHhhhcCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCC
Confidence            22222 222221    2223444444444444455666667888999999999999999999999876653

>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=99.33  E-value=1.8e-10  Score=97.10  Aligned_cols=222  Identities=12%  Similarity=0.014  Sum_probs=130.1

Q ss_pred             HHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcC--------------ChHHHHHHHHHHHHcCCCCchhhHHHHHHHHH
Q 039362          176 YKEALVIFEEMRDVGSKANEVTLVSVLCACAHLG--------------ALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYA  241 (440)
Q Consensus       176 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--------------~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  241 (440)
                      .+.+..+|+++.... +.+...+...+.-+...+              ..+++..++++.++...+.+...+..++..+.
T Consensus        32 ~~Rv~~vyerAl~~~-~~~~~lW~~y~~~~~~~~~~~~~~~~~~~~~~~~~~a~~i~~ral~~~~p~~~~l~~~ya~~~~  110 (308)
T d2onda1          32 TKRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEE  110 (308)
T ss_dssp             HHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCchHHHHHHHhhcccchHHHHHHHHHHHHHcCCCCHHHHHHHHHHHH
Confidence            455667777776542 334444444444333222              23566667776665544555556666666777


Q ss_pred             hcCCHHHHHHHHhhhhhcCCc--hhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHH-HHcCCChHHHH
Q 039362          242 KCGAIKEALIVFHGVEKHQSD--VLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSA-CAHGGLVMEAW  318 (440)
Q Consensus       242 ~~g~~~~A~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~-~~~~~~~~~a~  318 (440)
                      +.|+++.|..+|+++.+..|.  ...|...+....+.|+.+.|.++|+++.+.+ +.+...|...... +...|+.+.|.
T Consensus       111 ~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~~~al~~~-~~~~~~~~~~a~~e~~~~~~~~~a~  189 (308)
T d2onda1         111 SRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA-RTRHHVYVTAALMEYYCSKDKSVAF  189 (308)
T ss_dssp             HTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTST-TCCTHHHHHHHHHHHHTSCCHHHHH
T ss_pred             hcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHhccCHHHHH
Confidence            777777777777776655442  2356666666667777777777777766553 2223333332222 23346667777


Q ss_pred             HHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcC----CCCcc--HhHHHHHHHHHHhcCChhHHHHHHHHHH
Q 039362          319 YFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQM----PLEPT--ASMLGSLLTGCMNHGKLDLAEIVGKKLV  392 (440)
Q Consensus       319 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~----~~~p~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~  392 (440)
                      .+|+.+.+.. +.+...|...++.+.+.|+++.|..+|++.    +..|+  ...|...+..-...|+.+.+..+++++.
T Consensus       190 ~i~e~~l~~~-p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~~~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~  268 (308)
T d2onda1         190 KIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRF  268 (308)
T ss_dssp             HHHHHHHHHH-TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHhh-hhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            7777766642 224455666666666777777777777765    22332  2356666666566677777777777776


Q ss_pred             hcCCCCCc
Q 039362          393 ELQPDHDG  400 (440)
Q Consensus       393 ~~~~~~~~  400 (440)
                      +..|....
T Consensus       269 ~~~~~~~~  276 (308)
T d2onda1         269 TAFREEYE  276 (308)
T ss_dssp             HHTTTTTS
T ss_pred             HHCccccc
Confidence            66665543

>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=99.31  E-value=4.8e-10  Score=94.45  Aligned_cols=181  Identities=5%  Similarity=-0.002  Sum_probs=86.8

Q ss_pred             HHHHHHHHhhhhhc-CC-chhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHH
Q 039362          246 IKEALIVFHGVEKH-QS-DVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKS  323 (440)
Q Consensus       246 ~~~A~~~~~~~~~~-~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~  323 (440)
                      .++|..+|++..+. .| +...|...+..+...|+++.|..+|+++.+.........|...+..+.+.|+.+.|..+|.+
T Consensus        80 ~~~a~~i~~ral~~~~p~~~~l~~~ya~~~~~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~~~  159 (308)
T d2onda1          80 SDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKK  159 (308)
T ss_dssp             HHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHHHH
Confidence            34555555555432 22 23344555555555555555555555555432111122445555555555555555555555


Q ss_pred             HhhcCCCCCcchHHHHHHH-HHhcCCHHHHHHHHhcC-CC-CccHhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCCc
Q 039362          324 LGKRGMVPKSEHYACMVDA-LSRAGQVTEAYEFICQM-PL-EPTASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDG  400 (440)
Q Consensus       324 ~~~~~~~~~~~~~~~l~~~-~~~~~~~~~a~~~~~~~-~~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~  400 (440)
                      +.+.+. .+...|...+.. +...|+.+.|..+|+.+ .. ..+...|...+..+...|+.+.|..+|+++++..|.++.
T Consensus       160 al~~~~-~~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~~p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~~~~  238 (308)
T d2onda1         160 AREDAR-TRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKYGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPE  238 (308)
T ss_dssp             HHTSTT-CCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGG
T ss_pred             HHHhCC-CcHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCChH
Confidence            554321 122223222222 22235555555555555 21 223345555555555555555555555555555443322


Q ss_pred             ----hHHHHHHHHHhccChHHHHHHHHHHHh
Q 039362          401 ----RYVGLSNVYAIFKRWDEARTTREAMET  427 (440)
Q Consensus       401 ----~~~~l~~~~~~~g~~~~A~~~~~~~~~  427 (440)
                          .|..++..-...|+.+.+.++.+++.+
T Consensus       239 ~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~~  269 (308)
T d2onda1         239 KSGEIWARFLAFESNIGDLASILKVEKRRFT  269 (308)
T ss_dssp             GCHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence                344445544555555555555555544

>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=99.26  E-value=1e-11  Score=106.47  Aligned_cols=256  Identities=5%  Similarity=-0.159  Sum_probs=184.3

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhcCCCCCHH-HHHH---HHHH-------HHhcCChHHHHHHHHHHHHcCCCCchhhHH
Q 039362          166 LIDGYVKCGDYKEALVIFEEMRDVGSKANEV-TLVS---VLCA-------CAHLGALDQGRMMLRYMIDKGLSLTLPLQT  234 (440)
Q Consensus       166 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~---l~~~-------~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  234 (440)
                      ++......+..++|++++++....  .|+.. .|+.   ++..       +...|.+++|...++.+.+.. |.+...+.
T Consensus        35 ~~~~~~~~~~~~~al~~~~~~l~~--~P~~~~a~~~r~~~l~~l~~~~~~~~~~~~~~~al~~~~~~l~~~-pk~~~~~~  111 (334)
T d1dcea1          35 VFQKRQAGELDESVLELTSQILGA--NPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWH  111 (334)
T ss_dssp             HHHHHHTTCCSHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHH
T ss_pred             HHHHHhcccccHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHHHHhC-CCcHHHHH
Confidence            333333444568999999999876  45543 3322   2222       223345788999999988876 67777777


Q ss_pred             HHHHHHHhcC--CHHHHHHHHhhhhhcCC-chhhHH-HHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHc
Q 039362          235 SLIDMYAKCG--AIKEALIVFHGVEKHQS-DVLIWN-AMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAH  310 (440)
Q Consensus       235 ~l~~~~~~~g--~~~~A~~~~~~~~~~~~-~~~~~~-~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~  310 (440)
                      .+..++...+  ++++|...+.++....| +...+. .....+...+.++.|+..++.+...+ +-+...|..+...+..
T Consensus       112 ~~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~Al~~~~~~i~~~-p~~~~a~~~l~~~~~~  190 (334)
T d1dcea1         112 HRCWLLSRLPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN-FSNYSSWHYRSCLLPQ  190 (334)
T ss_dssp             HHHHHHHTCSSCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTT-CCCHHHHHHHHHHHHH
T ss_pred             HhhHHHHHhccccHHHHHHHHHHHHhhCchhhhhhhhHHHHHHHhccccHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHH
Confidence            7777777665  48899999999887765 455554 44467777899999999999888764 4456778888888888


Q ss_pred             CCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcC-CC-CccHhHHHHHHHHHHhcCChhHHHHHH
Q 039362          311 GGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQM-PL-EPTASMLGSLLTGCMNHGKLDLAEIVG  388 (440)
Q Consensus       311 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~-~p~~~~~~~l~~~~~~~g~~~~a~~~~  388 (440)
                      .|++++|...++...+.  .|+   ...+...+...+..+++...+... .. .++...+..++..+...|+.++|...+
T Consensus       191 ~~~~~~A~~~~~~~~~~--~~~---~~~~~~~~~~l~~~~~a~~~~~~~l~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  265 (334)
T d1dcea1         191 LHPQPDSGPQGRLPENV--LLK---ELELVQNAFFTDPNDQSAWFYHRWLLGRAEPLFRCELSVEKSTVLQSELESCKEL  265 (334)
T ss_dssp             HSCCCCSSSCCSSCHHH--HHH---HHHHHHHHHHHCSSCSHHHHHHHHHHSCCCCSSSCCCCHHHHHHHHHHHHHHHHH
T ss_pred             hcCHHHHHHHHHHhHHh--HHH---HHHHHHHHHHhcchhHHHHHHHHHHHhCcchhhHHHHHHHHHHHHhhHHHHHHHH
Confidence            88888776555544432  111   122334455667777777777665 22 233445556677777889999999999


Q ss_pred             HHHHhcCCCCCchHHHHHHHHHhccChHHHHHHHHHHHhcCC
Q 039362          389 KKLVELQPDHDGRYVGLSNVYAIFKRWDEARTTREAMETRGV  430 (440)
Q Consensus       389 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  430 (440)
                      .+....+|.+..++..++.++...|++++|.+.++++.+..+
T Consensus       266 ~~~~~~~p~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~ldP  307 (334)
T d1dcea1         266 QELEPENKWCLLTIILLMRALDPLLYEKETLQYFSTLKAVDP  307 (334)
T ss_dssp             HHHCTTCHHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHHCG
T ss_pred             HHHHhhCchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCc
Confidence            999999999999999999999999999999999999988653

>d1hh8a_ a.118.8.1 (A:) Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Neutrophil cytosolic factor 2 (NCF-2, p67-phox)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.91  E-value=8.7e-08  Score=73.81  Aligned_cols=86  Identities=13%  Similarity=-0.064  Sum_probs=53.0

Q ss_pred             HHHHhcCChHHHHHHHhhCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHH
Q 039362          137 DGYAKCGEMNMARQVFELMPERNVVSWSALIDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRM  216 (440)
Q Consensus       137 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  216 (440)
                      ..+...|++++|++.|.++..++..+|..+..+|...|++++|++.|++.++.+ +-....|..+..++.+.|++++|..
T Consensus        13 ~~~~~~~d~~~Al~~~~~i~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ld-p~~~~a~~~~g~~~~~~g~~~~A~~   91 (192)
T d1hh8a_          13 VLAADKKDWKGALDAFSAVQDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYYQTEKYDLAIK   91 (192)
T ss_dssp             HHHHHTTCHHHHHHHHHTSSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHh-hhhhhhHHHHHHHHHhhccHHHHHH
Confidence            344555666666666666655666666666666666666666666666666553 3345556666666666666666666


Q ss_pred             HHHHHHH
Q 039362          217 MLRYMID  223 (440)
Q Consensus       217 ~~~~~~~  223 (440)
                      .|++...
T Consensus        92 ~~~kAl~   98 (192)
T d1hh8a_          92 DLKEALI   98 (192)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            6666554

>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=98.88  E-value=5.1e-08  Score=80.95  Aligned_cols=192  Identities=11%  Similarity=-0.021  Sum_probs=98.4

Q ss_pred             HHHHhcCChHHHHHHHHHHHHc----CCC-CchhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCC-------chhhHHHHH
Q 039362          203 CACAHLGALDQGRMMLRYMIDK----GLS-LTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQS-------DVLIWNAMI  270 (440)
Q Consensus       203 ~~~~~~~~~~~a~~~~~~~~~~----~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-------~~~~~~~l~  270 (440)
                      ..|...|++++|...|.++.+.    +-+ .-..+|..+..+|.+.|++++|...+++.....+       ....+..+.
T Consensus        45 ~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~  124 (290)
T d1qqea_          45 TIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELG  124 (290)
T ss_dssp             HHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHHHHHHHH
Confidence            3455555666666665555432    111 1123555566666666666666666665543311       123344445


Q ss_pred             HHHHh-cCChHHHHHHHHHHHHc----CCCcc-HhhHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCCc------chHHH
Q 039362          271 GGLAM-HGFVKESLELFTEMQIV----GITPD-EITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKS------EHYAC  338 (440)
Q Consensus       271 ~~~~~-~~~~~~a~~~~~~m~~~----~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~------~~~~~  338 (440)
                      ..|.. .|++++|++.+++..+.    +.++. ..++..+...+...|++++|...|+++.........      ..+..
T Consensus       125 ~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~  204 (290)
T d1qqea_         125 EILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLK  204 (290)
T ss_dssp             HHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHH
T ss_pred             HhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHHHHHHHHHHhCccchhhhhhHHHHHHH
Confidence            55533 47777777777665431    11111 234566666777777777777777776654211111      11233


Q ss_pred             HHHHHHhcCCHHHHHHHHhcC-CCCcc------HhHHHHHHHHHHh--cCChhHHHHHHHHHHhc
Q 039362          339 MVDALSRAGQVTEAYEFICQM-PLEPT------ASMLGSLLTGCMN--HGKLDLAEIVGKKLVEL  394 (440)
Q Consensus       339 l~~~~~~~~~~~~a~~~~~~~-~~~p~------~~~~~~l~~~~~~--~g~~~~a~~~~~~~~~~  394 (440)
                      .+..+...|+++.|...+++. .+.|.      ......++.++..  .+.+++|+..|+++.++
T Consensus       205 ~~~~~l~~~d~~~A~~~~~~~~~~~~~~~~sre~~~l~~l~~a~~~~d~e~~~eai~~y~~~~~l  269 (290)
T d1qqea_         205 KGLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNFMRL  269 (290)
T ss_dssp             HHHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTCTTTHHHHHHHHTTSSCC
T ss_pred             HHHHHHHhccHHHHHHHHHHHHHhCCCccchHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhc
Confidence            444555667777777777766 33332      1233444444433  23356666666554444

>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=98.86  E-value=4.3e-09  Score=82.42  Aligned_cols=121  Identities=11%  Similarity=-0.093  Sum_probs=93.9

Q ss_pred             ccHhhHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcC-CCCcc-HhHHHHHHH
Q 039362          296 PDEITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQM-PLEPT-ASMLGSLLT  373 (440)
Q Consensus       296 p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p~-~~~~~~l~~  373 (440)
                      |+...+......+.+.|++++|+..|+++++.. +.+...|..+..+|.+.|++++|+..|++. .+.|+ ...|..++.
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~-p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~p~~~~a~~~lg~   80 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLGQ   80 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTTCHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHhCCCcHHHHHHHHH
Confidence            667777778888888999999999999888864 235667888888899999999999999887 66674 567888888


Q ss_pred             HHHhcCChhHHHHHHHHHHhcCCCCCchHHHHHHHHHhccChHH
Q 039362          374 GCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDE  417 (440)
Q Consensus       374 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  417 (440)
                      ++...|++++|+..|++++++.|.+...+...+..+...+....
T Consensus        81 ~~~~l~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~l~~~~~~~  124 (201)
T d2c2la1          81 CQLEMESYDEAIANLQRAYSLAKEQRLNFGDDIPSALRIAKKKR  124 (201)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHTTCCCCSHHHHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHHHHhH
Confidence            88899999999999999888887766655555555554443333

>d1hh8a_ a.118.8.1 (A:) Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Neutrophil cytosolic factor 2 (NCF-2, p67-phox)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.85  E-value=1.8e-07  Score=72.03  Aligned_cols=122  Identities=11%  Similarity=-0.007  Sum_probs=90.8

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCH
Q 039362          167 IDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAI  246 (440)
Q Consensus       167 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  246 (440)
                      ...+...|++++|++.|.++    .+|+..++..+..++...|++++|...|++.++.+ +.+...|..+..+|.+.|++
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            55667888899998888764    25667778888888888899999999998888877 67778888888888888888


Q ss_pred             HHHHHHHhhhhhcCC-c----------------hhhHHHHHHHHHhcCChHHHHHHHHHHHHcC
Q 039362          247 KEALIVFHGVEKHQS-D----------------VLIWNAMIGGLAMHGFVKESLELFTEMQIVG  293 (440)
Q Consensus       247 ~~A~~~~~~~~~~~~-~----------------~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~  293 (440)
                      ++|+..|++.....+ +                ..++..+..++.+.|++++|.+.+.......
T Consensus        87 ~~A~~~~~kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~~  150 (192)
T d1hh8a_          87 DLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMK  150 (192)
T ss_dssp             HHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHhCccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC
Confidence            888888887654211 1                1234455666777777777777777766543

>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=98.85  E-value=4.6e-09  Score=73.18  Aligned_cols=91  Identities=16%  Similarity=-0.032  Sum_probs=81.7

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHhcC-CCCc-cHhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCCchHHHHHHHHHhcc
Q 039362          336 YACMVDALSRAGQVTEAYEFICQM-PLEP-TASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFK  413 (440)
Q Consensus       336 ~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  413 (440)
                      ...+...+.+.|++++|+..|++. ...| +...|..++.++.+.|++++|+..++++++.+|.++.++..++.+|...|
T Consensus        19 ~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~la~~y~~~g   98 (112)
T d1hxia_          19 PMEEGLSMLKLANLAEAALAFEAVCQKEPEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHTNEH   98 (112)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhHHHHHHHhhhcccccccchhhhhhhhhhhhhhhHHHhhcccccccccccccccchHHHHHHHHHCC
Confidence            345677888999999999999998 5556 56888999999999999999999999999999999999999999999999


Q ss_pred             ChHHHHHHHHHHH
Q 039362          414 RWDEARTTREAME  426 (440)
Q Consensus       414 ~~~~A~~~~~~~~  426 (440)
                      ++++|.+.+++.+
T Consensus        99 ~~~~A~~~l~~~l  111 (112)
T d1hxia_          99 NANAALASLRAWL  111 (112)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHh
Confidence            9999999998864

>d1elwa_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.84  E-value=1.3e-08  Score=71.47  Aligned_cols=99  Identities=15%  Similarity=0.123  Sum_probs=46.5

Q ss_pred             HHHHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcC-CCCc-cHhHHHHHHHHHHhcCChhH
Q 039362          306 SACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQM-PLEP-TASMLGSLLTGCMNHGKLDL  383 (440)
Q Consensus       306 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~  383 (440)
                      ..+.+.|++++|+..|+++++.. +.+...|..+..+|...|++++|+..+++. .+.| +...|..++.++...|++++
T Consensus        11 ~~~~~~g~~~eAi~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~g~~~~~~~~~~~   89 (117)
T d1elwa_          11 NKALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAALEFLNRFEE   89 (117)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHhcC-CcchhhhhcccccccccccccccchhhhhHHHhccchhhHHHHHHHHHHHccCHHH
Confidence            34444555555555555555432 113334444455555555555555555544 2222 33444444455555555555


Q ss_pred             HHHHHHHHHhcCCCCCchHHHH
Q 039362          384 AEIVGKKLVELQPDHDGRYVGL  405 (440)
Q Consensus       384 a~~~~~~~~~~~~~~~~~~~~l  405 (440)
                      |+..++++++.+|.++.++..+
T Consensus        90 A~~~~~~a~~~~p~~~~~~~~l  111 (117)
T d1elwa_          90 AKRTYEEGLKHEANNPQLKEGL  111 (117)
T ss_dssp             HHHHHHHHHTTCTTCHHHHHHH
T ss_pred             HHHHHHHHHHhCCCCHHHHHHH
Confidence            5555555555555544444333

>d2c2la1 a.118.8.1 (A:24-224) STIP1 homology and U box-containing protein 1, STUB1 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: STIP1 homology and U box-containing protein 1, STUB1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.83  E-value=8.8e-09  Score=80.59  Aligned_cols=100  Identities=6%  Similarity=-0.142  Sum_probs=85.4

Q ss_pred             CchhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHhhcCCCC-CcchHHHH
Q 039362          261 SDVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVP-KSEHYACM  339 (440)
Q Consensus       261 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l  339 (440)
                      |+...+......+.+.|++++|+..|++..+.. +.+...|..+..+|.+.|++++|+..|+++++.  .| +...|..+
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~-p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l--~p~~~~a~~~l   78 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALEL--DGQSVKAHFFL   78 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS--CTTCHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHh--CCCcHHHHHHH
Confidence            666777788889999999999999999988875 566778999999999999999999999999885  34 46678889


Q ss_pred             HHHHHhcCCHHHHHHHHhcC-CCCc
Q 039362          340 VDALSRAGQVTEAYEFICQM-PLEP  363 (440)
Q Consensus       340 ~~~~~~~~~~~~a~~~~~~~-~~~p  363 (440)
                      ..+|...|++++|+..|+++ .+.|
T Consensus        79 g~~~~~l~~~~~A~~~~~~al~l~p  103 (201)
T d2c2la1          79 GQCQLEMESYDEAIANLQRAYSLAK  103 (201)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhCc
Confidence            99999999999999999987 4444

>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=98.82  E-value=2.8e-07  Score=76.34  Aligned_cols=201  Identities=12%  Similarity=0.014  Sum_probs=124.2

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhc----CCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCC-----CCchhh
Q 039362          163 WSALIDGYVKCGDYKEALVIFEEMRDV----GSKA-NEVTLVSVLCACAHLGALDQGRMMLRYMIDKGL-----SLTLPL  232 (440)
Q Consensus       163 ~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-----~~~~~~  232 (440)
                      |......|...|++++|.+.|.+..+.    +-++ -..+|..+..+|.+.|++++|...++...+...     .....+
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            334456666777777777777665432    1111 124566677777778888888777776654311     111344


Q ss_pred             HHHHHHHHHh-cCCHHHHHHHHhhhhhc---CC----chhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcc-----H-
Q 039362          233 QTSLIDMYAK-CGAIKEALIVFHGVEKH---QS----DVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPD-----E-  298 (440)
Q Consensus       233 ~~~l~~~~~~-~g~~~~A~~~~~~~~~~---~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~-----~-  298 (440)
                      +..+...|.. .|++++|+..|++..+.   ..    ...++..+...+...|++++|...|+++........     . 
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            5556666644 58888888888876543   11    134577788889999999999999998876532111     1 


Q ss_pred             hhHHHHHHHHHcCCChHHHHHHHHHHhhcCCC-CCc---chHHHHHHHHHh--cCCHHHHHHHHhcC-CCCc
Q 039362          299 ITFLGLLSACAHGGLVMEAWYFFKSLGKRGMV-PKS---EHYACMVDALSR--AGQVTEAYEFICQM-PLEP  363 (440)
Q Consensus       299 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~---~~~~~l~~~~~~--~~~~~~a~~~~~~~-~~~p  363 (440)
                      ..+...+..+...|+++.|...+++..+.... ++.   .....++.++..  .+.+++|+..|+++ .+.|
T Consensus       200 ~~~~~~~~~~l~~~d~~~A~~~~~~~~~~~~~~~~sre~~~l~~l~~a~~~~d~e~~~eai~~y~~~~~lD~  271 (290)
T d1qqea_         200 DYFLKKGLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNFMRLDK  271 (290)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTCTTTHHHHHHHHTTSSCCCH
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCccchHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhcCH
Confidence            12334444566789999999999988775311 121   234556666654  34588899988887 4433

>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=98.80  E-value=3.1e-08  Score=74.01  Aligned_cols=117  Identities=13%  Similarity=-0.002  Sum_probs=91.8

Q ss_pred             HHHHHHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcC-CCCc-cHhHHHHHHHHHHhcCCh
Q 039362          304 LLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQM-PLEP-TASMLGSLLTGCMNHGKL  381 (440)
Q Consensus       304 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~  381 (440)
                      ....|.+.|++++|+..|+++++.. +.+...|..+..+|...|++++|...|+++ .+.| +...|..++.++...|++
T Consensus        16 ~gn~~~~~~~y~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~p~~~~a~~~~g~~~~~~g~~   94 (159)
T d1a17a_          16 QANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMALGKF   94 (159)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHcCCHHHHHHHhhhccccc-hhhhhhhhhhHHHHHhccccchHHHHHHHHHHHcccchHHHHHHHHHHHHcCCH
Confidence            3456778888888888888888864 235667888888888999999999998887 5555 447888899999999999


Q ss_pred             hHHHHHHHHHHhcCCCCCchHHHHHHHH--HhccChHHHHHH
Q 039362          382 DLAEIVGKKLVELQPDHDGRYVGLSNVY--AIFKRWDEARTT  421 (440)
Q Consensus       382 ~~a~~~~~~~~~~~~~~~~~~~~l~~~~--~~~g~~~~A~~~  421 (440)
                      ++|...++++...+|.++.++..+..+.  ...+.+++|...
T Consensus        95 ~eA~~~~~~a~~~~p~~~~~~~~l~~~~~~~~~~~~~~a~~~  136 (159)
T d1a17a_          95 RAALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAG  136 (159)
T ss_dssp             HHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence            9999999999999999988777766554  344556666554

>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=98.77  E-value=2.6e-07  Score=64.62  Aligned_cols=94  Identities=15%  Similarity=0.045  Sum_probs=52.7

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCH
Q 039362          167 IDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAI  246 (440)
Q Consensus       167 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  246 (440)
                      ...+.+.|++++|+..|++.++.. +.+...|..+..++...|++++|...+....+.+ +.+...|..+..++...|++
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            344555566666666666655543 3344455555555555666666666666555554 44555555555555555555


Q ss_pred             HHHHHHHhhhhhcCCc
Q 039362          247 KEALIVFHGVEKHQSD  262 (440)
Q Consensus       247 ~~A~~~~~~~~~~~~~  262 (440)
                      ++|+..|++..+..|+
T Consensus        88 ~~A~~~~~~a~~~~p~  103 (117)
T d1elwa_          88 EEAKRTYEEGLKHEAN  103 (117)
T ss_dssp             HHHHHHHHHHHTTCTT
T ss_pred             HHHHHHHHHHHHhCCC
Confidence            5555555555554443

>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=98.69  E-value=5e-07  Score=67.18  Aligned_cols=93  Identities=14%  Similarity=0.108  Sum_probs=46.5

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCH
Q 039362          167 IDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAI  246 (440)
Q Consensus       167 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  246 (440)
                      ...|.+.|++++|+..|++..+.. +-+...|..+..++...|++++|...|+.+++.+ +.+..++..++.+|...|++
T Consensus        17 gn~~~~~~~y~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~-p~~~~a~~~~g~~~~~~g~~   94 (159)
T d1a17a_          17 ANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMALGKF   94 (159)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHcCCHHHHHHHhhhccccc-hhhhhhhhhhHHHHHhccccchHHHHHHHHHHHc-ccchHHHHHHHHHHHHcCCH
Confidence            344455555555555555555443 3344444445555555555555555555555444 44444455555555555555


Q ss_pred             HHHHHHHhhhhhcCC
Q 039362          247 KEALIVFHGVEKHQS  261 (440)
Q Consensus       247 ~~A~~~~~~~~~~~~  261 (440)
                      ++|...+++.....|
T Consensus        95 ~eA~~~~~~a~~~~p  109 (159)
T d1a17a_          95 RAALRDYETVVKVKP  109 (159)
T ss_dssp             HHHHHHHHHHHHHST
T ss_pred             HHHHHHHHHHHHcCC
Confidence            555555555544444

>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=98.67  E-value=6.2e-08  Score=68.08  Aligned_cols=104  Identities=12%  Similarity=0.030  Sum_probs=77.8

Q ss_pred             HHHHHHHHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCC---HHHHHHHHhcC-CCCccH---hHHHHHHHH
Q 039362          302 LGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQ---VTEAYEFICQM-PLEPTA---SMLGSLLTG  374 (440)
Q Consensus       302 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~---~~~a~~~~~~~-~~~p~~---~~~~~l~~~  374 (440)
                      ..++..+...+++++|++.|++....+ +.+..++..+..++.+.++   +++|+.+++++ ...|++   .++..++.+
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            345666777788888888888888865 2356777777877776544   45688888886 444433   367788899


Q ss_pred             HHhcCChhHHHHHHHHHHhcCCCCCchHHHHH
Q 039362          375 CMNHGKLDLAEIVGKKLVELQPDHDGRYVGLS  406 (440)
Q Consensus       375 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~  406 (440)
                      |.+.|++++|++.|+++++.+|.+..+.....
T Consensus        82 y~~~g~~~~A~~~~~~aL~~~P~~~~A~~l~~  113 (122)
T d1nzna_          82 NYRLKEYEKALKYVRGLLQTEPQNNQAKELER  113 (122)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHH
T ss_pred             HHHHhhhHHHHHHHHHHHHhCcCCHHHHHHHH
Confidence            99999999999999999999999876554443

>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=98.66  E-value=8.9e-06  Score=66.04  Aligned_cols=229  Identities=11%  Similarity=-0.044  Sum_probs=107.5

Q ss_pred             chhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHh----cCChHHHHHHHHHHHHcCCCCchhhHH
Q 039362          159 NVVSWSALIDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAH----LGALDQGRMMLRYMIDKGLSLTLPLQT  234 (440)
Q Consensus       159 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~  234 (440)
                      |+..+..|...+...+++++|++.|++..+.|   +...+..|...|..    ..++..+...+....+.+.   +....
T Consensus         1 ~p~~~~~lG~~~~~~~d~~~A~~~~~kAa~~g---~~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a~~~~~---~~a~~   74 (265)
T d1ouva_           1 DPKELVGLGAKSYKEKDFTQAKKYFEKACDLK---ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLNY---SNGCH   74 (265)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC---HHHHH
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcchhHHHHHHhhcccccccc---cchhh
Confidence            34455666666667777777777777776655   33344444444443    3456666666666555441   12222


Q ss_pred             HHHHHHHh----cCCHHHHHHHHhhhhhcCCchhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHc
Q 039362          235 SLIDMYAK----CGAIKEALIVFHGVEKHQSDVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAH  310 (440)
Q Consensus       235 ~l~~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~  310 (440)
                      .+...+..    .++.+.|...++...+..+... ...+...+...                               ...
T Consensus        75 ~l~~~~~~~~~~~~~~~~a~~~~~~a~~~g~~~a-~~~l~~~~~~~-------------------------------~~~  122 (265)
T d1ouva_          75 LLGNLYYSGQGVSQNTNKALQYYSKACDLKYAEG-CASLGGIYHDG-------------------------------KVV  122 (265)
T ss_dssp             HHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHH-HHHHHHHHHHC-------------------------------SSS
T ss_pred             ccccccccccccchhhHHHHHHHhhhhhhhhhhH-HHhhcccccCC-------------------------------Ccc
Confidence            23222221    2344445444444433222111 11111111110                               001


Q ss_pred             CCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHh----cCCHHHHHHHHhcCCCCccHhHHHHHHHHHHh----cCChh
Q 039362          311 GGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSR----AGQVTEAYEFICQMPLEPTASMLGSLLTGCMN----HGKLD  382 (440)
Q Consensus       311 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~  382 (440)
                      ......+...+......   .+...+..+...|..    ..+...+..+++...-..+......+...+..    ..+++
T Consensus       123 ~~~~~~a~~~~~~~~~~---~~~~~~~~L~~~~~~~~~~~~~~~~~~~~~~~a~~~g~~~A~~~lg~~y~~g~~~~~d~~  199 (265)
T d1ouva_         123 TRDFKKAVEYFTKACDL---NDGDGCTILGSLYDAGRGTPKDLKKALASYDKACDLKDSPGCFNAGNMYHHGEGATKNFK  199 (265)
T ss_dssp             CCCHHHHHHHHHHHHHT---TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCSSCCCHH
T ss_pred             cchhHHHHHHhhhhhcc---cccchhhhhhhhhccCCCcccccccchhhhhccccccccccccchhhhcccCcccccchh
Confidence            22233333333333331   123333334444432    22333444444433112233333344444433    45677


Q ss_pred             HHHHHHHHHHhcCCCCCchHHHHHHHHHh----ccChHHHHHHHHHHHhcCC
Q 039362          383 LAEIVGKKLVELQPDHDGRYVGLSNVYAI----FKRWDEARTTREAMETRGV  430 (440)
Q Consensus       383 ~a~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~~  430 (440)
                      +|+..|+++.+.+  ++..+..|+.+|..    ..+.++|.++|++..+.|.
T Consensus       200 ~A~~~~~~aa~~g--~~~a~~~LG~~y~~G~g~~~n~~~A~~~~~kAa~~g~  249 (265)
T d1ouva_         200 EALARYSKACELE--NGGGCFNLGAMQYNGEGVTRNEKQAIENFKKGCKLGA  249 (265)
T ss_dssp             HHHHHHHHHHHTT--CHHHHHHHHHHHHTTSSSSCCSTTHHHHHHHHHHHTC
T ss_pred             hhhhhHhhhhccc--CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHCcC
Confidence            7777777776665  33466667776665    3367777777777766654

>d1b89a_ a.118.1.3 (A:) Clathrin heavy chain proximal leg segment {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: Clathrin heavy chain proximal leg segment
domain: Clathrin heavy chain proximal leg segment
species: Cow (Bos taurus) [TaxId: 9913]

Probab=98.65  E-value=6.9e-05  Score=62.01  Aligned_cols=233  Identities=10%  Similarity=0.030  Sum_probs=98.8

Q ss_pred             HHHHHHHHhcCCHHHHHHHhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHhhCCCCchhhHHHHHHHHHhcCCHHHHHH
Q 039362          102 NSLIHMYGSCGDIVYAREVFDGMPTKMSVSWNSMLDGYAKCGEMNMARQVFELMPERNVVSWSALIDGYVKCGDYKEALV  181 (440)
Q Consensus       102 ~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  181 (440)
                      ..+...|.+.|.++.|..+|..+..     |..++..+.+.++++.|.+.+.+..  +..+|..+...+.+.....-+  
T Consensus        18 ~~i~~~c~~~~lye~A~~lY~~~~d-----~~rl~~~~v~l~~~~~avd~~~k~~--~~~~~k~~~~~l~~~~e~~la--   88 (336)
T d1b89a_          18 QQVGDRCYDEKMYDAAKLLYNNVSN-----FGRLASTLVHLGEYQAAVDGARKAN--STRTWKEVCFACVDGKEFRLA--   88 (336)
T ss_dssp             -----------CTTTHHHHHHHTTC-----HHHHHHHHHTTTCHHHHHHHHHHHT--CHHHHHHHHHHHHHTTCHHHH--
T ss_pred             HHHHHHHHHCCCHHHHHHHHHhCCC-----HHHHHHHHHhhccHHHHHHHHHHcC--CHHHHHHHHHHHHhCcHHHHH--
Confidence            3344445555555555555544432     4444455555555555555554432  344555555555555444332  


Q ss_pred             HHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhc-C
Q 039362          182 IFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKH-Q  260 (440)
Q Consensus       182 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~  260 (440)
                         .+...+...+......++..|...|.+++...+++...... +.+...++.++.+|++.+ .++-.+.+...... .
T Consensus        89 ---~i~~~~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~~-~~~~~~~~~L~~lyak~~-~~kl~e~l~~~s~~y~  163 (336)
T d1b89a_          89 ---QMCGLHIVVHADELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKFK-PQKMREHLELFWSRVN  163 (336)
T ss_dssp             ---HHTTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTST-TCCHHHHHHHHHHHHTTC-HHHHHHHHHHHSTTSC
T ss_pred             ---HHHHHHhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcCC-ccchHHHHHHHHHHHHhC-hHHHHHHHHhccccCC
Confidence               11222223344444455556666666666666666554332 444555555666665543 23333333322110 0


Q ss_pred             C--------chhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCC
Q 039362          261 S--------DVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPK  332 (440)
Q Consensus       261 ~--------~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  332 (440)
                      +        ....|..++-.|.+.|+++.|..++-   ..  +++.......+..+.+..+.+...++.....+.  .| 
T Consensus       164 ~~k~~~~c~~~~l~~elv~Ly~~~~~~~~A~~~~i---~~--~~~~~~~~~f~e~~~k~~N~e~~~~~i~~yL~~--~p-  235 (336)
T d1b89a_         164 IPKVLRAAEQAHLWAELVFLYDKYEEYDNAIITMM---NH--PTDAWKEGQFKDIITKVANVELYYRAIQFYLEF--KP-  235 (336)
T ss_dssp             HHHHHHHHHTTTCHHHHHHHHHHTTCHHHHHHHHH---HS--TTTTCCHHHHHHHHHHCSSTHHHHHHHHHHHHH--CG-
T ss_pred             HHHHHHHHHHcCChHHHHHHHHhcCCHHHHHHHHH---Hc--chhhhhHHHHHHHHHccCChHHHHHHHHHHHHc--CH-
Confidence            0        11123344444455555555544322   11  233333334444455555555444444444332  12 


Q ss_pred             cchHHHHHHHHHhcCCHHHHHHHHh
Q 039362          333 SEHYACMVDALSRAGQVTEAYEFIC  357 (440)
Q Consensus       333 ~~~~~~l~~~~~~~~~~~~a~~~~~  357 (440)
                       ...+.++......-+..+..+.++
T Consensus       236 -~~i~~lL~~v~~~~d~~r~V~~~~  259 (336)
T d1b89a_         236 -LLLNDLLMVLSPRLDHTRAVNYFS  259 (336)
T ss_dssp             -GGHHHHHHHHGGGCCHHHHHHHHH
T ss_pred             -HHHHHHHHHhccCCCHHHHHHHHH
Confidence             233444444444444444444333

>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=98.62  E-value=2.7e-07  Score=69.47  Aligned_cols=134  Identities=13%  Similarity=0.018  Sum_probs=93.9

Q ss_pred             hhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHH
Q 039362          264 LIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDAL  343 (440)
Q Consensus       264 ~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  343 (440)
                      ..+......+.+.|++++|+..|.+....-  |....            ....-......+.       ..+|+.+..+|
T Consensus        14 ~~l~~~G~~~~~~~~~~~Ai~~y~~al~~~--~~~~~------------~~~~~~~~~~~~~-------~~~~~nla~~y   72 (170)
T d1p5qa1          14 TIVKERGTVYFKEGKYKQALLQYKKIVSWL--EYESS------------FSNEEAQKAQALR-------LASHLNLAMCH   72 (170)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHT--TTCCC------------CCSHHHHHHHHHH-------HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHh--hhccc------------cchHHHhhhchhH-------HHHHHHHHHHH
Confidence            344555667777888888888887776541  11000            0000000111111       12566788889


Q ss_pred             HhcCCHHHHHHHHhcC-CCCc-cHhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCCchHHHHHHHHHhccChHHH
Q 039362          344 SRAGQVTEAYEFICQM-PLEP-TASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEA  418 (440)
Q Consensus       344 ~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  418 (440)
                      .+.|++++|+..+++. .+.| ++..+..++.++...|++++|+..|+++++++|.++.+...+..+..+.+...+.
T Consensus        73 ~k~~~~~~A~~~~~~al~~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~P~n~~~~~~l~~~~~~~~~~~~~  149 (170)
T d1p5qa1          73 LKLQAFSAAIESCNKALELDSNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYPNNKAAKTQLAVCQQRIRRQLAR  149 (170)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHHHHHHHH
T ss_pred             HhhhhcccccchhhhhhhccccchhhhHHHHHHHHHhhhHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999987 5556 6688889999999999999999999999999999998888888877665554443

>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=98.55  E-value=3.5e-05  Score=62.37  Aligned_cols=158  Identities=12%  Similarity=-0.029  Sum_probs=98.5

Q ss_pred             chhhHHHHHHHHHhcCChHHHHHHHhhCCC-CchhhHHHHHHHHHh----cCCHHHHHHHHHHHHhcCCCCCHHHHHHHH
Q 039362          128 MSVSWNSMLDGYAKCGEMNMARQVFELMPE-RNVVSWSALIDGYVK----CGDYKEALVIFEEMRDVGSKANEVTLVSVL  202 (440)
Q Consensus       128 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  202 (440)
                      |+..+..|...+.+.+++++|++.|++..+ .+...+..|...|..    ..+...|...+......+ .  ......+.
T Consensus         1 ~p~~~~~lG~~~~~~~d~~~A~~~~~kAa~~g~~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a~~~~-~--~~a~~~l~   77 (265)
T d1ouva_           1 DPKELVGLGAKSYKEKDFTQAKKYFEKACDLKENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN-Y--SNGCHLLG   77 (265)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT-C--HHHHHHHH
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCcchhHHHHHHhhccccccc-c--cchhhccc
Confidence            456677788888899999999999999865 466777778777776    668999999999988766 2  23333333


Q ss_pred             HHHH----hcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHh----cCCHHHHHHHHhhhhhcCCchhhHHHHHHHHH
Q 039362          203 CACA----HLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAK----CGAIKEALIVFHGVEKHQSDVLIWNAMIGGLA  274 (440)
Q Consensus       203 ~~~~----~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~  274 (440)
                      ..+.    ...+.+.|...++...+.|. +.  ....+...+..    ......+...+..... ..+...+..+...+.
T Consensus        78 ~~~~~~~~~~~~~~~a~~~~~~a~~~g~-~~--a~~~l~~~~~~~~~~~~~~~~a~~~~~~~~~-~~~~~~~~~L~~~~~  153 (265)
T d1ouva_          78 NLYYSGQGVSQNTNKALQYYSKACDLKY-AE--GCASLGGIYHDGKVVTRDFKKAVEYFTKACD-LNDGDGCTILGSLYD  153 (265)
T ss_dssp             HHHHHTSSSCCCHHHHHHHHHHHHHTTC-HH--HHHHHHHHHHHCSSSCCCHHHHHHHHHHHHH-TTCHHHHHHHHHHHH
T ss_pred             cccccccccchhhHHHHHHHhhhhhhhh-hh--HHHhhcccccCCCcccchhHHHHHHhhhhhc-ccccchhhhhhhhhc
Confidence            3333    24678889999998887763 22  22233333332    3345555555555443 334445555555554


Q ss_pred             h----cCChHHHHHHHHHHHHc
Q 039362          275 M----HGFVKESLELFTEMQIV  292 (440)
Q Consensus       275 ~----~~~~~~a~~~~~~m~~~  292 (440)
                      .    ..+...+...++...+.
T Consensus       154 ~~~~~~~~~~~~~~~~~~a~~~  175 (265)
T d1ouva_         154 AGRGTPKDLKKALASYDKACDL  175 (265)
T ss_dssp             HTSSSCCCHHHHHHHHHHHHHT
T ss_pred             cCCCcccccccchhhhhccccc
Confidence            3    23444455555554443

>d1ya0a1 a.118.8.1 (A:1-497) SMG-7 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: SMG-7
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.52  E-value=2.4e-08  Score=89.59  Aligned_cols=107  Identities=9%  Similarity=-0.080  Sum_probs=38.7

Q ss_pred             hHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcC-CCCccH-hHHHHHHHHHHh
Q 039362          300 TFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQM-PLEPTA-SMLGSLLTGCMN  377 (440)
Q Consensus       300 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p~~-~~~~~l~~~~~~  377 (440)
                      .+..+...+.+.|+.+.|...+.......  | ..++..+...+...|++++|...|++. .+.|+. ..|+.++..+..
T Consensus       122 ~~~~lg~~~~~~~~~~~A~~~~~~al~~~--~-~~~~~~LG~l~~~~~~~~~A~~~y~~A~~l~P~~~~~~~~Lg~~~~~  198 (497)
T d1ya0a1         122 KSSQLGIISNKQTHTSAIVKPQSSSCSYI--C-QHCLVHLGDIARYRNQTSQAESYYRHAAQLVPSNGQPYNQLAILASS  198 (497)
T ss_dssp             ---------------------CCHHHHHH--H-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTBSHHHHHHHHHHHH
T ss_pred             HHHHhHHHHHhCCCHHHHHHHHHHHhCCC--H-HHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCCchHHHHHHHHHHHH
Confidence            33344444444444444444444333311  1 123344444444555555555555544 333322 444445555555


Q ss_pred             cCChhHHHHHHHHHHhcCCCCCchHHHHHHHH
Q 039362          378 HGKLDLAEIVGKKLVELQPDHDGRYVGLSNVY  409 (440)
Q Consensus       378 ~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~  409 (440)
                      .|+..+|...|.+++...|+.+.++..|...+
T Consensus       199 ~~~~~~A~~~y~ral~~~~~~~~a~~nL~~~~  230 (497)
T d1ya0a1         199 KGDHLTTIFYYCRSIAVKFPFPAASTNLQKAL  230 (497)
T ss_dssp             TTCHHHHHHHHHHHHSSSBCCHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHH
Confidence            55555555555555555544444444444444

>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=98.50  E-value=5.3e-07  Score=67.75  Aligned_cols=112  Identities=9%  Similarity=-0.066  Sum_probs=82.3

Q ss_pred             hHHHHHHHHHcCCChHHHHHHHHHHhhcC-CCCCcchHHHHHHHHHhcCCHHHHHHHHhcCCCCccHhHHHHHHHHHHhc
Q 039362          300 TFLGLLSACAHGGLVMEAWYFFKSLGKRG-MVPKSEHYACMVDALSRAGQVTEAYEFICQMPLEPTASMLGSLLTGCMNH  378 (440)
Q Consensus       300 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~p~~~~~~~l~~~~~~~  378 (440)
                      .+......+.+.|++++|+..|.+.+... ..+....-               -.....    .....+|..+..+|.+.
T Consensus        15 ~l~~~G~~~~~~~~~~~Ai~~y~~al~~~~~~~~~~~~---------------~~~~~~----~~~~~~~~nla~~y~k~   75 (170)
T d1p5qa1          15 IVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNE---------------EAQKAQ----ALRLASHLNLAMCHLKL   75 (170)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSH---------------HHHHHH----HHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHhhhccccchH---------------HHhhhc----hhHHHHHHHHHHHHHhh
Confidence            34455566777788888888888777641 11110000               000000    01124677788899999


Q ss_pred             CChhHHHHHHHHHHhcCCCCCchHHHHHHHHHhccChHHHHHHHHHHHhcCC
Q 039362          379 GKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEARTTREAMETRGV  430 (440)
Q Consensus       379 g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  430 (440)
                      |++++|+..++++++.+|.++.++..++.+|...|++++|...|++.++..+
T Consensus        76 ~~~~~A~~~~~~al~~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~P  127 (170)
T d1p5qa1          76 QAFSAAIESCNKALELDSNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYP  127 (170)
T ss_dssp             TCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCS
T ss_pred             hhcccccchhhhhhhccccchhhhHHHHHHHHHhhhHHHHHHHHHHHHHhCC
Confidence            9999999999999999999999999999999999999999999999988654

>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=98.50  E-value=7.8e-07  Score=62.27  Aligned_cols=97  Identities=14%  Similarity=0.142  Sum_probs=53.1

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCC---hHHHHHHHHHHHHcCCCCc-hhhHHHHHHHH
Q 039362          165 ALIDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGA---LDQGRMMLRYMIDKGLSLT-LPLQTSLIDMY  240 (440)
Q Consensus       165 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~  240 (440)
                      .+++.+...+++++|.+.|++....+ +.+..++..+..++.+.++   +++|+.+++++.+.+..|+ ..++..+..+|
T Consensus         4 ~l~n~~~~~~~l~~Ae~~Y~~aL~~~-p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~~y   82 (122)
T d1nzna_           4 AVLNELVSVEDLLKFEKKFQSEKAAG-SVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGN   82 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHS-CCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHH
T ss_pred             HHHHHhcCHHHHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHHHH
Confidence            45555556666666666666665554 4455555555555554333   3346666666555432222 22445556666


Q ss_pred             HhcCCHHHHHHHHhhhhhcCCc
Q 039362          241 AKCGAIKEALIVFHGVEKHQSD  262 (440)
Q Consensus       241 ~~~g~~~~A~~~~~~~~~~~~~  262 (440)
                      .+.|++++|+..|+++.+..|+
T Consensus        83 ~~~g~~~~A~~~~~~aL~~~P~  104 (122)
T d1nzna_          83 YRLKEYEKALKYVRGLLQTEPQ  104 (122)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCTT
T ss_pred             HHHhhhHHHHHHHHHHHHhCcC
Confidence            6666666666666666555554

>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=98.47  E-value=1.1e-06  Score=60.75  Aligned_cols=87  Identities=14%  Similarity=0.008  Sum_probs=41.8

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCH
Q 039362          167 IDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAI  246 (440)
Q Consensus       167 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  246 (440)
                      ...+.+.|++++|+..|++..... +-+...+..+..++.+.|++++|+..+++..+.. |.+...+..+..+|...|++
T Consensus        23 g~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~la~~y~~~g~~  100 (112)
T d1hxia_          23 GLSMLKLANLAEAALAFEAVCQKE-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTNEHNA  100 (112)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhhHHHHHHHhhhcccc-cccchhhhhhhhhhhhhhhHHHhhcccccccccc-cccccchHHHHHHHHHCCCH
Confidence            344445555555555555554442 2234444444445555555555555555554443 33444444444555555555


Q ss_pred             HHHHHHHhh
Q 039362          247 KEALIVFHG  255 (440)
Q Consensus       247 ~~A~~~~~~  255 (440)
                      ++|.+.+++
T Consensus       101 ~~A~~~l~~  109 (112)
T d1hxia_         101 NAALASLRA  109 (112)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            555444443

>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=98.40  E-value=3.6e-06  Score=62.98  Aligned_cols=93  Identities=14%  Similarity=0.065  Sum_probs=74.0

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHhcC-CCCc-cHhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCCchHHHHHHHHHhc
Q 039362          335 HYACMVDALSRAGQVTEAYEFICQM-PLEP-TASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIF  412 (440)
Q Consensus       335 ~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~  412 (440)
                      +|..+..+|.+.|++++|+..+++. .+.| +...|..++.++...|++++|+..|+++++++|+++.+...+..+....
T Consensus        66 ~~~Nla~~~~~l~~~~~Ai~~~~~al~l~p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l~P~n~~~~~~l~~~~~~~  145 (168)
T d1kt1a1          66 AFLNLAMCYLKLREYTKAVECCDKALGLDSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQNKAARLQIFMCQKKA  145 (168)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHH
T ss_pred             HHHhHHHHHHHhhhcccchhhhhhhhhcccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHH
Confidence            4666788889999999999999987 4444 5678888999999999999999999999999999998888888777666


Q ss_pred             cChH-HHHHHHHHHHh
Q 039362          413 KRWD-EARTTREAMET  427 (440)
Q Consensus       413 g~~~-~A~~~~~~~~~  427 (440)
                      +... ...+++.+|-+
T Consensus       146 ~~~~e~~kk~~~~~f~  161 (168)
T d1kt1a1         146 KEHNERDRRTYANMFK  161 (168)
T ss_dssp             HHHHHHHHHHHHHHHH
T ss_pred             HhHHHHHHHHHHHHHh
Confidence            5443 34555555543

>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=98.39  E-value=1e-06  Score=66.20  Aligned_cols=85  Identities=15%  Similarity=0.070  Sum_probs=65.1

Q ss_pred             cchHHHHHHHHHhcCCHHHHHHHHhcC-CCCc-cHhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCCchHHHHHHHHH
Q 039362          333 SEHYACMVDALSRAGQVTEAYEFICQM-PLEP-TASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYA  410 (440)
Q Consensus       333 ~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~  410 (440)
                      ...+..+..++.+.|++++|+..++++ .+.| +...|..++.++...|++++|+..|+++++++|.++.+...+..+..
T Consensus        77 ~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l~p~n~~~~~~l~~~~~  156 (169)
T d1ihga1          77 LSCVLNIGACKLKMSDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQEIAPEDKAIQAELLKVKQ  156 (169)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhcccchhhhhhhhhhhhhhhhhhHHHhHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHH
Confidence            345666778888888888888888887 5556 44678888888888899999999999999988888877777766665


Q ss_pred             hccChHH
Q 039362          411 IFKRWDE  417 (440)
Q Consensus       411 ~~g~~~~  417 (440)
                      +.....+
T Consensus       157 ~l~~~~~  163 (169)
T d1ihga1         157 KIKAQKD  163 (169)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            5444433

>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=98.39  E-value=7e-07  Score=63.45  Aligned_cols=92  Identities=11%  Similarity=0.169  Sum_probs=60.3

Q ss_pred             HHHHHHHHhcCCHHHHHHHHhcC-CCCc-cHhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCCch-------HHHHHH
Q 039362          337 ACMVDALSRAGQVTEAYEFICQM-PLEP-TASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGR-------YVGLSN  407 (440)
Q Consensus       337 ~~l~~~~~~~~~~~~a~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~-------~~~l~~  407 (440)
                      ..+...+.+.|++++|++.|++. .+.| +...+..+..+|.+.|++++|+..++++++.+|.++..       |..++.
T Consensus         8 k~~G~~~~~~~~y~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~lg~   87 (128)
T d1elra_           8 KELGNDAYKKKDFDTALKHYDKAKELDPTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARIGN   87 (128)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHHH
Confidence            34556666777777777777666 3334 35666677777777777777777777777777666543       334555


Q ss_pred             HHHhccChHHHHHHHHHHHhc
Q 039362          408 VYAIFKRWDEARTTREAMETR  428 (440)
Q Consensus       408 ~~~~~g~~~~A~~~~~~~~~~  428 (440)
                      .+...+++++|.+.+++.+..
T Consensus        88 ~~~~~~~~~~A~~~~~kal~~  108 (128)
T d1elra_          88 SYFKEEKYKDAIHFYNKSLAE  108 (128)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHhCCHHHHHHHHHHHHhc
Confidence            556666777777777766543

>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=98.38  E-value=9.8e-07  Score=64.94  Aligned_cols=110  Identities=11%  Similarity=-0.082  Sum_probs=64.8

Q ss_pred             hHHHHHHHHHcCCChHHHHHHHHHHhhcC-CCCC--cchHHHHHHHHHhcCCHHHHHHHHhcCCCCccHhHHHHHHHHHH
Q 039362          300 TFLGLLSACAHGGLVMEAWYFFKSLGKRG-MVPK--SEHYACMVDALSRAGQVTEAYEFICQMPLEPTASMLGSLLTGCM  376 (440)
Q Consensus       300 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~p~~~~~~~l~~~~~  376 (440)
                      .+..-...+.+.|++.+|+..|.+++..- ..++  ........                    ......++..+..+|.
T Consensus        19 ~~~~~G~~~f~~~~y~~A~~~Y~~al~~~~~~~~~~~~~~~~~~--------------------~~~~~~~~~Nla~~~~   78 (153)
T d2fbna1          19 DIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKK--------------------KNIEISCNLNLATCYN   78 (153)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHH--------------------HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhhCcchhhhhhHHHHHhh--------------------hhHHHHHHhhHHHHHH
Confidence            45555667778888888888888877641 0110  00000000                    0011234555666666


Q ss_pred             hcCChhHHHHHHHHHHhcCCCCCchHHHHHHHHHhccChHHHHHHHHHHHhcC
Q 039362          377 NHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEARTTREAMETRG  429 (440)
Q Consensus       377 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  429 (440)
                      +.|++++|+..++++++.+|.+..+|..++.++...|++++|...|++.++.+
T Consensus        79 ~l~~~~~Al~~~~~al~~~p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l~  131 (153)
T d2fbna1          79 KNKDYPKAIDHASKVLKIDKNNVKALYKLGVANMYFGFLEEAKENLYKAASLN  131 (153)
T ss_dssp             HTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS
T ss_pred             HhcccchhhhhhhccccccchhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            66666666666666666666666666666666666666666666666666544

>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=98.29  E-value=8.5e-06  Score=57.63  Aligned_cols=58  Identities=16%  Similarity=0.228  Sum_probs=29.1

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 039362          165 ALIDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMID  223 (440)
Q Consensus       165 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  223 (440)
                      .+...+...|++++|+..|.+.++.+ +.+...+..+..+|.+.|++++|...++++++
T Consensus         9 ~~G~~~~~~~~y~~Ai~~y~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~   66 (128)
T d1elra_           9 ELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIE   66 (128)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHhHHHHHHHcCchHHHHHHHHHHHH
Confidence            34444555555555555555555443 23444444555555555555555555555443

>d1b89a_ a.118.1.3 (A:) Clathrin heavy chain proximal leg segment {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: Clathrin heavy chain proximal leg segment
domain: Clathrin heavy chain proximal leg segment
species: Cow (Bos taurus) [TaxId: 9913]

Probab=98.28  E-value=0.00068  Score=55.92  Aligned_cols=134  Identities=12%  Similarity=0.016  Sum_probs=77.9

Q ss_pred             CCChHHHHHHHHHHHccCChhhHHHHHHHHHHcCCCCCcchHHHHHHHhhchhcHHHHHHHHHHHHHcCCCCcHHHHHHH
Q 039362           25 NPRIFYWNTVIRGYSKSKNPNKSISLFVKMLRAGVSPDHLTYPFLAKASGRLAKRELAVAVHAQIAKTGYESDLFISNSL  104 (440)
Q Consensus        25 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  104 (440)
                      .||..--..+++.|.+.|.++.|..+|..+..         |..++..+.+.++++.|.+++...      -+..++..+
T Consensus        11 ~~n~~d~~~i~~~c~~~~lye~A~~lY~~~~d---------~~rl~~~~v~l~~~~~avd~~~k~------~~~~~~k~~   75 (336)
T d1b89a_          11 GPNNAHIQQVGDRCYDEKMYDAAKLLYNNVSN---------FGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEV   75 (336)
T ss_dssp             CC----------------CTTTHHHHHHHTTC---------HHHHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHH
T ss_pred             CCCcCCHHHHHHHHHHCCCHHHHHHHHHhCCC---------HHHHHHHHHhhccHHHHHHHHHHc------CCHHHHHHH
Confidence            45555556677778889999999998876543         677888888888888887776543      256678888


Q ss_pred             HHHHHhcCCHHHHHHHhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHhhCCC---CchhhHHHHHHHHHhcC
Q 039362          105 IHMYGSCGDIVYAREVFDGMPTKMSVSWNSMLDGYAKCGEMNMARQVFELMPE---RNVVSWSALIDGYVKCG  174 (440)
Q Consensus       105 ~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~  174 (440)
                      ...+.+......+.-+ ......++.....++..|...|.+++...+++....   .+...++.++..|++.+
T Consensus        76 ~~~l~~~~e~~la~i~-~~~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~~~~~~~~~~~L~~lyak~~  147 (336)
T d1b89a_          76 CFACVDGKEFRLAQMC-GLHIVVHADELEELINYYQDRGYFEELITMLEAALGLERAHMGMFTELAILYSKFK  147 (336)
T ss_dssp             HHHHHHTTCHHHHHHT-TTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSTTCCHHHHHHHHHHHHTTC
T ss_pred             HHHHHhCcHHHHHHHH-HHHhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcCCccchHHHHHHHHHHHHhC
Confidence            8888877766554332 222222333445677777777777777777776432   44556677777776653

>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=98.26  E-value=5.4e-06  Score=61.95  Aligned_cols=112  Identities=11%  Similarity=0.020  Sum_probs=80.3

Q ss_pred             hHHHHHHHHHcCCChHHHHHHHHHHhhc-CCCCCcchHHHHHHHHHhcCCHHHHHHHHhcCCCCccHhHHHHHHHHHHhc
Q 039362          300 TFLGLLSACAHGGLVMEAWYFFKSLGKR-GMVPKSEHYACMVDALSRAGQVTEAYEFICQMPLEPTASMLGSLLTGCMNH  378 (440)
Q Consensus       300 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~p~~~~~~~l~~~~~~~  378 (440)
                      .+.-....+.+.|++.+|...|++.+.. ...+....-.            .....       .-...+|..+..++.+.
T Consensus        17 ~~~e~G~~~~~~~~~~~A~~~Y~~al~~~~~~~~~~~~~------------~~~~~-------~~~~~~~~Nla~~~~~l   77 (168)
T d1kt1a1          17 IVKEKGTVYFKGGKYVQAVIQYGKIVSWLEMEYGLSEKE------------SKASE-------SFLLAAFLNLAMCYLKL   77 (168)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHH------------HHHHH-------HHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhccchhh------------hhhcc-------hhHHHHHHhHHHHHHHh
Confidence            4555566667777777777777766543 1111100000            00000       00134566788889999


Q ss_pred             CChhHHHHHHHHHHhcCCCCCchHHHHHHHHHhccChHHHHHHHHHHHhcCC
Q 039362          379 GKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEARTTREAMETRGV  430 (440)
Q Consensus       379 g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  430 (440)
                      |++++|+..++++++++|.+..++..++.++...|++++|.+.|+++++..+
T Consensus        78 ~~~~~Ai~~~~~al~l~p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l~P  129 (168)
T d1kt1a1          78 REYTKAVECCDKALGLDSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNP  129 (168)
T ss_dssp             TCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCT
T ss_pred             hhcccchhhhhhhhhcccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC
Confidence            9999999999999999999999999999999999999999999999987653

>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=98.25  E-value=3.4e-05  Score=56.40  Aligned_cols=61  Identities=18%  Similarity=0.105  Sum_probs=35.9

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHhhhhhcCC-chhhHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 039362          232 LQTSLIDMYAKCGAIKEALIVFHGVEKHQS-DVLIWNAMIGGLAMHGFVKESLELFTEMQIV  292 (440)
Q Consensus       232 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~  292 (440)
                      ++..+..+|.+.|++++|+..+..+.+..| ++.+|..+..++...|++++|+..|++..+.
T Consensus        69 ~~~Nla~~~~~l~~~~~Al~~~~~al~~~p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l  130 (153)
T d2fbna1          69 CNLNLATCYNKNKDYPKAIDHASKVLKIDKNNVKALYKLGVANMYFGFLEEAKENLYKAASL  130 (153)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHhhHHHHHHHhcccchhhhhhhccccccchhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHh
Confidence            444555566666666666666666555544 3455666666666666666666666665554

>d1ya0a1 a.118.8.1 (A:1-497) SMG-7 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: SMG-7
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.24  E-value=2.2e-07  Score=83.23  Aligned_cols=262  Identities=8%  Similarity=-0.055  Sum_probs=142.5

Q ss_pred             HHHHHHhhCCC--Cc-hhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 039362          147 MARQVFELMPE--RN-VVSWSALIDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMID  223 (440)
Q Consensus       147 ~a~~~~~~~~~--~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  223 (440)
                      +|.+.|++..+  |+ ...+..+..++...|++++|   |++++..  .|+...-......+. ...+..+.+.++...+
T Consensus         4 eA~q~~~qA~~l~p~~a~a~~~la~~~~~~~~l~ea---ye~~i~~--dp~~a~~~~~e~~Lw-~~~y~~~ie~~r~~~k   77 (497)
T d1ya0a1           4 QSAQYLRQAEVLKADMTDSKLGPAEVWTSRQALQDL---YQKMLVT--DLEYALDKKVEQDLW-NHAFKNQITTLQGQAK   77 (497)
T ss_dssp             HHHHHHHHHHHHHGGGTCSSSCSSSSHHHHHHHHHH---HHHHHHH--CHHHHHHHTHHHHHH-HHHTHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHcCCCCHHHHhhHHHHHHHHchHHHH---HHHHHHc--ChhhHHHHhHHHHHH-HHHHHHHHHHHHHhcc
Confidence            57777777754  33 45677778888888888876   6676654  332211111111111 1224566777777665


Q ss_pred             cCCCCchhhHHH--HHHHHHhcCCHHHHHHHHhhhhhcCC-chhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhh
Q 039362          224 KGLSLTLPLQTS--LIDMYAKCGAIKEALIVFHGVEKHQS-DVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEIT  300 (440)
Q Consensus       224 ~~~~~~~~~~~~--l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~  300 (440)
                      ....++..-...  +...+...+.++.|+..+....+..| +...+..+...+.+.|+.+.|...+.......  | ..+
T Consensus        78 ~~~~~~~~~~~~~~~~~l~~a~~~Y~~ai~~l~~~~~l~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~--~-~~~  154 (497)
T d1ya0a1          78 NRANPNRSEVQANLSLFLEAASGFYTQLLQELCTVFNVDLPCRVKSSQLGIISNKQTHTSAIVKPQSSSCSYI--C-QHC  154 (497)
T ss_dssp             CSSCTTTTHHHHHHHHHHHHHHHHHHHHHHHHTC-------------------------------CCHHHHHH--H-HHH
T ss_pred             cccCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCChhhHHHHHHhHHHHHhCCCHHHHHHHHHHHhCCC--H-HHH
Confidence            543343332222  12223345667777777777665544 46677888888899999999998888766431  2 356


Q ss_pred             HHHHHHHHHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcC-C-CCccHhHHHHHHHHHHhc
Q 039362          301 FLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQM-P-LEPTASMLGSLLTGCMNH  378 (440)
Q Consensus       301 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~-~~p~~~~~~~l~~~~~~~  378 (440)
                      +..+...+...|++++|+..|+++.+.. +-+...|+.+...+...|+..+|...|.+. . ..|-...+..|...+.+.
T Consensus       155 ~~~LG~l~~~~~~~~~A~~~y~~A~~l~-P~~~~~~~~Lg~~~~~~~~~~~A~~~y~ral~~~~~~~~a~~nL~~~~~~~  233 (497)
T d1ya0a1         155 LVHLGDIARYRNQTSQAESYYRHAAQLV-PSNGQPYNQLAILASSKGDHLTTIFYYCRSIAVKFPFPAASTNLQKALSKA  233 (497)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTBSHHHHHHHHHHHHTTCHHHHHHHHHHHHSSSBCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHHHHC-CCchHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHh
Confidence            7788899999999999999999999864 235678999999999999999999999987 3 355667788887776554


Q ss_pred             CChhHHHHHHHHHHhcCCCCC---chHHHHHHHHHhccChHHHHHHHHHH
Q 039362          379 GKLDLAEIVGKKLVELQPDHD---GRYVGLSNVYAIFKRWDEARTTREAM  425 (440)
Q Consensus       379 g~~~~a~~~~~~~~~~~~~~~---~~~~~l~~~~~~~g~~~~A~~~~~~~  425 (440)
                      .+..++.       ...+..+   ..+..+...+...+..++..++.+++
T Consensus       234 ~~~~~~~-------~~~~~~~~~~~~f~~~~~~l~~~~~~~~~~~~~~~~  276 (497)
T d1ya0a1         234 LESRDEV-------KTKWGVSDFIKAFIKFHGHVYLSKSLEKLSPLREKL  276 (497)
T ss_dssp             TTSCCCC-------CSSCCHHHHHHHHHHHHHHHHHTCCGGGHHHHHHHH
T ss_pred             hhhhhhh-------ccccccchHHHHHHHHHHHHHhCCchhhHHHHHHHH
Confidence            3221110       0001111   12344444555666666666555544

>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=98.23  E-value=4.3e-06  Score=62.96  Aligned_cols=121  Identities=12%  Similarity=0.033  Sum_probs=84.5

Q ss_pred             HHHHHHHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcCCCCccHhHHHHHHHHHHhcCChh
Q 039362          303 GLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQMPLEPTASMLGSLLTGCMNHGKLD  382 (440)
Q Consensus       303 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~  382 (440)
                      .........|++++|...|.......  +....        ......+-+...-..+. ......+..++..+...|+++
T Consensus        16 ~~g~~~~~~g~~e~A~~~~~~AL~l~--rG~~l--------~~~~~~~w~~~~r~~l~-~~~~~a~~~la~~~~~~g~~~   84 (179)
T d2ff4a2          16 TAGVHAAAAGRFEQASRHLSAALREW--RGPVL--------DDLRDFQFVEPFATALV-EDKVLAHTAKAEAEIACGRAS   84 (179)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTTC--CSSTT--------GGGTTSTTHHHHHHHHH-HHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHhhC--ccccc--------ccCcchHHHHHHHHHHH-HHHHHHHHHHHHHHHHCCCch
Confidence            33456678899999999999988751  11100        00000000000000000 112356778888999999999


Q ss_pred             HHHHHHHHHHhcCCCCCchHHHHHHHHHhccChHHHHHHHHHHHh-----cCCccCC
Q 039362          383 LAEIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEARTTREAMET-----RGVKKYP  434 (440)
Q Consensus       383 ~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-----~~~~~~~  434 (440)
                      +|+..++++++.+|.+...|..++.+|.+.|++++|++.|+++.+     .|+.+.|
T Consensus        85 ~Al~~~~~al~~~P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~  141 (179)
T d2ff4a2          85 AVIAELEALTFEHPYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGP  141 (179)
T ss_dssp             HHHHHHHHHHHHSTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCH
T ss_pred             HHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCH
Confidence            999999999999999999999999999999999999999999854     4666544

>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=98.12  E-value=2.9e-05  Score=57.96  Aligned_cols=62  Identities=16%  Similarity=0.062  Sum_probs=29.9

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 039362          162 SWSALIDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDK  224 (440)
Q Consensus       162 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  224 (440)
                      .|..+..++.+.|++++|+..+++.++.. +.+...|..+..++...|++++|...|+.+.+.
T Consensus        79 ~~~nla~~~~~~~~~~~Ai~~~~~al~~~-p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l  140 (169)
T d1ihga1          79 CVLNIGACKLKMSDWQGAVDSCLEALEID-PSNTKALYRRAQGWQGLKEYDQALADLKKAQEI  140 (169)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhcccchhhhhhhhhhhhh-hhhhhHHHhHHHHHHHccCHHHHHHHHHHHHHh
Confidence            34444445555555555555555554432 223444444444555555555555555554444

>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=98.07  E-value=3.5e-06  Score=61.11  Aligned_cols=128  Identities=16%  Similarity=0.081  Sum_probs=73.6

Q ss_pred             HHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcC----------CChHHHHHHHHHHhhcCCCCCcchHHHHHHH
Q 039362          273 LAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHG----------GLVMEAWYFFKSLGKRGMVPKSEHYACMVDA  342 (440)
Q Consensus       273 ~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~----------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  342 (440)
                      |-+.+.+++|+..|+...+.. |.+...+..+..++...          +.+++|+..|+++++.. +.+..+|..+..+
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            345566777777777776654 44455666666555533          23345555555555532 1133444445544


Q ss_pred             HHhcCCHHHHHHHHhcCCCCccHhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCCchHHHHHHHHHhccChHHHHHHH
Q 039362          343 LSRAGQVTEAYEFICQMPLEPTASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEARTTR  422 (440)
Q Consensus       343 ~~~~~~~~~a~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  422 (440)
                      |...|++.            ++...         ..+.+++|.+.|+++++.+|.+...+..+...       .+|.+++
T Consensus        85 y~~~g~~~------------~~~~~---------~~~~~~~A~~~~~kal~l~P~~~~~~~~L~~~-------~ka~~~~  136 (145)
T d1zu2a1          85 YTSFAFLT------------PDETE---------AKHNFDLATQFFQQAVDEQPDNTHYLKSLEMT-------AKAPQLH  136 (145)
T ss_dssp             HHHHHHHC------------CCHHH---------HHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHH-------HTHHHHH
T ss_pred             HHHcccch------------hhHHH---------HHHhHHHhhhhhhcccccCCCHHHHHHHHHHH-------HHHHHHH
Confidence            44433211            11100         12246889999999999999997666666554       4666777


Q ss_pred             HHHHhcCC
Q 039362          423 EAMETRGV  430 (440)
Q Consensus       423 ~~~~~~~~  430 (440)
                      .+..++|+
T Consensus       137 ~e~~k~~~  144 (145)
T d1zu2a1         137 AEAYKQGL  144 (145)
T ss_dssp             HHHHHSSS
T ss_pred             HHHHHHhc
Confidence            77766654

>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=98.01  E-value=1.1e-05  Score=64.74  Aligned_cols=127  Identities=12%  Similarity=-0.043  Sum_probs=75.6

Q ss_pred             HhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCC-cchHHHHHHHHHhcCCHHHH
Q 039362          274 AMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPK-SEHYACMVDALSRAGQVTEA  352 (440)
Q Consensus       274 ~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a  352 (440)
                      .+.|++++|+..+++.++.. +.|...+..+...++..|++++|...++...+..  |+ ...+..+...+...+..+++
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            34566777777777666653 4455566666666777777777777777666642  33 22333333334333333333


Q ss_pred             HHHHhcC--CCCcc-HhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCCchHH
Q 039362          353 YEFICQM--PLEPT-ASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYV  403 (440)
Q Consensus       353 ~~~~~~~--~~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~  403 (440)
                      ..-....  ...|+ ...+...+..+...|+.++|.+.++++.+..|..+..++
T Consensus        84 ~~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~~p~~~~~~~  137 (264)
T d1zbpa1          84 AQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEELRQEKGFLAN  137 (264)
T ss_dssp             TTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCCCCEEET
T ss_pred             HHHhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCCCcccc
Confidence            3322222  12232 334444556677889999999999999999888776543

>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=97.99  E-value=1.6e-05  Score=52.63  Aligned_cols=70  Identities=23%  Similarity=0.226  Sum_probs=52.5

Q ss_pred             HHHHHHHhcCCHHHHHHHHhcC-C-------CCc-cHhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCCchHHHHHH
Q 039362          338 CMVDALSRAGQVTEAYEFICQM-P-------LEP-TASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSN  407 (440)
Q Consensus       338 ~l~~~~~~~~~~~~a~~~~~~~-~-------~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~  407 (440)
                      .+...+.+.|++++|...|++. .       ..+ ...++..+..++.+.|++++|+..++++++.+|.++.++..+..
T Consensus        10 ~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l~P~~~~a~~Nl~~   88 (95)
T d1tjca_          10 ELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELDPEHQRANGNLKY   88 (95)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHhCcCCHHHHHHHHH
Confidence            4566666777777776666655 1       112 24678889999999999999999999999999999887776644

>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=97.96  E-value=1.8e-05  Score=58.14  Aligned_cols=63  Identities=11%  Similarity=-0.089  Sum_probs=48.8

Q ss_pred             hHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCC-----------CchHHHHHHHHHhccChHHHHHHHHHHHhc
Q 039362          366 SMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDH-----------DGRYVGLSNVYAIFKRWDEARTTREAMETR  428 (440)
Q Consensus       366 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~-----------~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  428 (440)
                      ..|+.+..++...|++++|...++++++..|..           ..++..++.+|...|++++|.+.|++.++.
T Consensus        56 ~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~l  129 (156)
T d2hr2a1          56 FCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEM  129 (156)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCccchhhHhhhhhhhcccccccccccccchhHHHHhhhHHHHHHHHHHHHHHHHHHHHHHh
Confidence            467778888888888888888888887653211           124677889999999999999999988764

>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=97.95  E-value=4e-05  Score=55.34  Aligned_cols=70  Identities=6%  Similarity=-0.101  Sum_probs=36.9

Q ss_pred             hcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhc----------CChHHHHHHHHHHHHcCCCCchhhHHHHHHHHH
Q 039362          172 KCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHL----------GALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYA  241 (440)
Q Consensus       172 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  241 (440)
                      +.+.+++|...|+...+.. |.+...+..+..++...          +.+++|+..+++.++.+ |.+..++..+..+|.
T Consensus         9 r~~~fe~A~~~~e~al~~~-P~~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~l~-P~~~~a~~~lG~~y~   86 (145)
T d1zu2a1           9 RILLFEQIRQDAENTYKSN-PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLID-PKKDEAVWCIGNAYT   86 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHccHHHHHHHHHHHHhhC-CcchHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHhc-chhhHHHhhHHHHHH
Confidence            3445666666666665553 33445555555554432          23345555555555554 445555555555554


Q ss_pred             hc
Q 039362          242 KC  243 (440)
Q Consensus       242 ~~  243 (440)
                      ..
T Consensus        87 ~~   88 (145)
T d1zu2a1          87 SF   88 (145)
T ss_dssp             HH
T ss_pred             Hc
Confidence            43

>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=97.93  E-value=0.00012  Score=54.69  Aligned_cols=70  Identities=13%  Similarity=0.091  Sum_probs=42.7

Q ss_pred             hhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHhh-----cCCCCCcc
Q 039362          264 LIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGK-----RGMVPKSE  334 (440)
Q Consensus       264 ~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~  334 (440)
                      ..+..+...+...|++++|+..++++.... +-+...|..++.++.+.|+..+|++.|+++.+     .|+.|+..
T Consensus        68 ~a~~~la~~~~~~g~~~~Al~~~~~al~~~-P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~  142 (179)
T d2ff4a2          68 LAHTAKAEAEIACGRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPT  142 (179)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHH
T ss_pred             HHHHHHHHHHHHCCCchHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHH
Confidence            345556666666666666666666666553 44555666666666666666666666666533     25555543

>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=97.85  E-value=1.4e-05  Score=64.14  Aligned_cols=121  Identities=12%  Similarity=-0.010  Sum_probs=58.1

Q ss_pred             HhcCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCCc-hhhHHHHHHHHHhcCChHHHHH
Q 039362          206 AHLGALDQGRMMLRYMIDKGLSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQSD-VLIWNAMIGGLAMHGFVKESLE  284 (440)
Q Consensus       206 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~  284 (440)
                      .+.|++++|+..+++.++.. |.+...+..+...|+..|++++|...|+...+..|+ ...+..+...+...+..+++..
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~~   85 (264)
T d1zbpa1           7 LSEGQLQQALELLIEAIKAS-PKDASLRSSFIELLCIDGDFERADEQLMQSIKLFPEYLPGASQLRHLVKAAQARKDFAQ   85 (264)
T ss_dssp             TTTTCHHHHHHHHHHHHHTC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHHHHHHTT
T ss_pred             HHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhccccHHHHH
Confidence            34566666666666666655 555666666666666666666666666666655553 2233333333222222221111


Q ss_pred             HHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHhhc
Q 039362          285 LFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKR  327 (440)
Q Consensus       285 ~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  327 (440)
                      -.......+-+++...+......+...|+.++|...++++.+.
T Consensus        86 ~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~  128 (264)
T d1zbpa1          86 GAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEEL  128 (264)
T ss_dssp             SCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhc
Confidence            1100000011122223333344455566666666666666554

>d1tjca_ a.118.8.1 (A:) Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Prolyl 4-hydroxylase alpha-1 subunit, P4HA1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.67  E-value=7.4e-05  Score=49.26  Aligned_cols=66  Identities=11%  Similarity=-0.110  Sum_probs=55.7

Q ss_pred             HhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCC-------chHHHHHHHHHhccChHHHHHHHHHHHhcCC
Q 039362          365 ASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHD-------GRYVGLSNVYAIFKRWDEARTTREAMETRGV  430 (440)
Q Consensus       365 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~-------~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  430 (440)
                      ...+..++..+.+.|++++|+..|+++++..|.++       .++..++.++.+.|++++|.+.++++++..+
T Consensus         5 addc~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l~P   77 (95)
T d1tjca_           5 AEDSFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELDP   77 (95)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHhCc
Confidence            34455788899999999999999999998764432       3688899999999999999999999988754

>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=97.59  E-value=0.00021  Score=52.21  Aligned_cols=65  Identities=22%  Similarity=0.075  Sum_probs=45.2

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHhcC--------CCCcc-----HhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCC
Q 039362          335 HYACMVDALSRAGQVTEAYEFICQM--------PLEPT-----ASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHD  399 (440)
Q Consensus       335 ~~~~l~~~~~~~~~~~~a~~~~~~~--------~~~p~-----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~  399 (440)
                      +|+.+..+|.+.|++++|...+++.        ...++     ...+..+..+|...|++++|+..|++++++.|...
T Consensus        57 ~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~l~~~~~  134 (156)
T d2hr2a1          57 CHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEMIEERK  134 (156)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCC
T ss_pred             HHHHHHHHHHHcCccchhhHhhhhhhhcccccccccccccchhHHHHhhhHHHHHHHHHHHHHHHHHHHHHHhhHHhh
Confidence            4556666677777777666666554        11111     23567788899999999999999999998765443

>d1qsaa1 a.118.5.1 (A:1-450) 70 KDa soluble lytic transglycosylase (SLT70), superhelical domain {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Bacterial muramidases
family: Bacterial muramidases
domain: 70 KDa soluble lytic transglycosylase (SLT70), superhelical domain
species: Escherichia coli [TaxId: 562]

Probab=97.27  E-value=0.047  Score=47.12  Aligned_cols=385  Identities=11%  Similarity=-0.010  Sum_probs=207.9

Q ss_pred             cCChhhHHHHhhhcCCCChHHHHHHHHHHHc--cCChhhHHHHHHHHHHcCCCCCcch----HHHHHHHhhchhcHHHHH
Q 039362           10 LGNIDYSCKVLSHLSNPRIFYWNTVIRGYSK--SKNPNKSISLFVKMLRAGVSPDHLT----YPFLAKASGRLAKRELAV   83 (440)
Q Consensus        10 ~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~--~~~~~~a~~~~~~~~~~~~~~~~~~----~~~l~~~~~~~~~~~~a~   83 (440)
                      .|+...+.++...+..--...|-..-..-..  .....+...   -+.+.   |+...    -...+..+.+.++++...
T Consensus        19 ~~~~~~~~~~~~~L~dypL~pYl~~~~l~~~~~~~~~~~i~~---Fl~~~---p~~P~~~~lr~~~l~~L~~~~~w~~~~   92 (450)
T d1qsaa1          19 NRQMDVVEQMMPGLKDYPLYPYLEYRQITDDLMNQPAVTVTN---FVRAN---PTLPPARTLQSRFVNELARREDWRGLL   92 (450)
T ss_dssp             TTCHHHHHHHSGGGTTSTTHHHHHHHHHHHTGGGCCHHHHHH---HHHHC---TTCHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             CCCHHHHHHHHhhhcCCCCHHHHHHHHHHhccccCCHHHHHH---HHHHC---CCChhHHHHHHHHHHHHHhccCHHHHH
Confidence            4888999999888864224444433332222  223333332   23332   33322    233345566777776544


Q ss_pred             HHHHHHHHcCCCCcHHHHHHHHHHHHhcCCHHHHHHHhhCC--CC-CchhhHHH------------------HHHHHHhc
Q 039362           84 AVHAQIAKTGYESDLFISNSLIHMYGSCGDIVYAREVFDGM--PT-KMSVSWNS------------------MLDGYAKC  142 (440)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~--~~-~~~~~~~~------------------l~~~~~~~  142 (440)
                      ..+    . ..+.+...-.....+....|+.+.|...+..+  .. ..+..++.                  -+......
T Consensus        93 ~~~----~-~~p~~~~~~c~~~~A~~~~g~~~~a~~~~~~lW~~~~~~p~~c~~l~~~~~~~~~lt~~~~~~R~~~~l~~  167 (450)
T d1qsaa1          93 AFS----P-EKPGTTEAQCNYYYAKWNTGQSEEAWQGAKELWLTGKSQPNACDKLFSVWRASGKQDPLAYLERIRLAMKA  167 (450)
T ss_dssp             HHC----C-SCCSSHHHHHHHHHHHHHTTCHHHHHHHHHHHHSCSSCCCTHHHHHHHHHHHTTCSCHHHHHHHHHHHHHT
T ss_pred             Hhc----c-CCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCCCCHHHHHHHHHHHHHc
Confidence            322    1 22345555556777777888887776655432  11 11112222                  33334555


Q ss_pred             CChHHHHHHHhhCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHh--cCChHHHHHHHHH
Q 039362          143 GEMNMARQVFELMPERNVVSWSALIDGYVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAH--LGALDQGRMMLRY  220 (440)
Q Consensus       143 ~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~--~~~~~~a~~~~~~  220 (440)
                      |+...|..+...+...........+..........   ...   ...  .++......+..++.+  ..+.+.+...+..
T Consensus       168 ~~~~~a~~l~~~l~~~~~~~~~a~~~l~~~p~~~~---~~~---~~~--~~~~~~~~~~~~~l~rla~~d~~~a~~~l~~  239 (450)
T d1qsaa1         168 GNTGLVTVLAGQMPADYQTIASAIISLANNPNTVL---TFA---RTT--GATDFTRQMAAVAFASVARQDAENARLMIPS  239 (450)
T ss_dssp             TCHHHHHHHHHTCCGGGHHHHHHHHHHHHCGGGHH---HHH---HHS--CCCHHHHHHHHHHHHHHHHHCHHHHHHHHHH
T ss_pred             CChhhHHHHHhhCChhHHHHHHHHHHHHhChHhHH---HHH---hcC--CCChhhhHHHHHHHHHHhccChhHHHHHHHh
Confidence            66666666666655433333344443332222221   111   111  2333333333333332  3577888888888


Q ss_pred             HHHcCCCCchhhHHH----HHHHHHhcCCHHHHHHHHhhhhhcCCchhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCc
Q 039362          221 MIDKGLSLTLPLQTS----LIDMYAKCGAIKEALIVFHGVEKHQSDVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITP  296 (440)
Q Consensus       221 ~~~~~~~~~~~~~~~----l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p  296 (440)
                      ..... ..+......    +...+...+..+.+...+........+.....-.+......+++..+...+..|... ...
T Consensus       240 ~~~~~-~~~~~~~~~~~~~~a~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~w~~~~al~~~~~~~~~~~~~~l~~~-~~~  317 (450)
T d1qsaa1         240 LAQAQ-QLNEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIMRSQSTSLIERRVRMALGTGDRRGLNTWLARLPME-AKE  317 (450)
T ss_dssp             HHHHT-TCCHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHHTCCCHHHHHHHHHHHHHHTCHHHHHHHHHHSCTT-GGG
T ss_pred             hhhcc-cccHHHHHHHHHHHHHHHHHcCchHHHHHHHHhhcccccchHHHHHHHHHHHHcCChHHHHHHHHhcCcc-ccc
Confidence            76654 222222222    222233456677787777776655555555555556667778999999888877432 122


Q ss_pred             cHhhHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHhcCCHHHHHHHHhcCCCCccHh----HHHHHH
Q 039362          297 DEITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSRAGQVTEAYEFICQMPLEPTAS----MLGSLL  372 (440)
Q Consensus       297 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~p~~~----~~~~l~  372 (440)
                      ...-.-.+..++...|+.+.|...|..+..   .++  .|..|..  .+.|..-.. . .......+...    .-..-+
T Consensus       318 ~~r~~YW~gRa~~~~G~~~~A~~~~~~~a~---~~~--fYG~LAa--~~Lg~~~~~-~-~~~~~~~~~~~~~~~~~~~ra  388 (450)
T d1qsaa1         318 KDEWRYWQADLLLERGREAEAKEILHQLMQ---QRG--FYPMVAA--QRIGEEYEL-K-IDKAPQNVDSALTQGPEMARV  388 (450)
T ss_dssp             SHHHHHHHHHHHHHTTCHHHHHHHHHHHHT---SCS--HHHHHHH--HHTTCCCCC-C-CCCCCSCCCCHHHHSHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCChhhHHHHHHHHhc---CCC--hHHHHHH--HHcCCCCCC-C-cCCCCccHHHhhhcChHHHHH
Confidence            234456677888899999999999998865   232  3433322  233321000 0 00011111110    111234


Q ss_pred             HHHHhcCChhHHHHHHHHHHhcCCCCCchHHHHHHHHHhccChHHHHHHHHHHH
Q 039362          373 TGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEARTTREAME  426 (440)
Q Consensus       373 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  426 (440)
                      ..+...|....|...+..+....  ++.....++....+.|.++.|+....+..
T Consensus       389 ~~L~~~g~~~~A~~e~~~l~~~~--~~~~~~~la~lA~~~g~~~~aI~a~~~~~  440 (450)
T d1qsaa1         389 RELMYWNLDNTARSEWANLVKSK--SKTEQAQLARYAFNNQWWDLSVQATIAGK  440 (450)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHTTC--CHHHHHHHHHHHHHTTCHHHHHHHHHHTT
T ss_pred             HHHHHcCCchHHHHHHHHHHhCC--CHHHHHHHHHHHHHCCChhHHHHHHHHHH
Confidence            55778999999999999887543  34567788888999999999998776553

>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=97.15  E-value=0.0052  Score=41.02  Aligned_cols=140  Identities=12%  Similarity=0.138  Sum_probs=95.0

Q ss_pred             HHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHhhc-CCCCCcchHHHHHHHHHhcCCHHH
Q 039362          273 LAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKR-GMVPKSEHYACMVDALSRAGQVTE  351 (440)
Q Consensus       273 ~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~  351 (440)
                      +.-.|..++..+++.+....   .+..-|+.++--....-+=+...+.++.+-+. .+.|-. ....++..+...+    
T Consensus        12 ~ildG~ve~Gveii~k~~~s---s~~~E~NW~ICNiidt~dC~~v~~~Ld~IG~~FDls~C~-Nlk~vv~C~~~~n----   83 (161)
T d1wy6a1          12 FLLDGYIDEGVKIVLEITKS---STKSEYNWFICNLLESIDCRYMFQVLDKIGSYFDLDKCQ-NLKSVVECGVINN----   83 (161)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH---SCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGGSCGGGCS-CTHHHHHHHHHTT----
T ss_pred             HHHhhhHHhHHHHHHHHccc---CCccccceeeeecccccchHHHHHHHHHHhhhcCchhhh-cHHHHHHHHHHhc----
Confidence            44568888888888887753   34455666665555555555666666655442 211111 1223333333332    


Q ss_pred             HHHHHhcCCCCccHhHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCCchHHHHHHHHHhccChHHHHHHHHHHHhcCCc
Q 039362          352 AYEFICQMPLEPTASMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAIFKRWDEARTTREAMETRGVK  431 (440)
Q Consensus       352 a~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  431 (440)
                                 .+...++..+..+..+|+-+.-.++++.+.+.+..+|..+..++.+|.+.|...++.+++.+.-+.|+.
T Consensus        84 -----------~~se~vdlALd~lv~~~kkd~Ld~i~~~l~kn~~i~~~~llkia~A~kkig~~re~nell~~ACe~G~K  152 (161)
T d1wy6a1          84 -----------TLNEHVNKALDILVIQGKRDKLEEIGREILKNNEVSASILVAIANALRRVGDERDATTLLIEACKKGEK  152 (161)
T ss_dssp             -----------CCCHHHHHHHHHHHHTTCHHHHHHHHHHHC--CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCH
T ss_pred             -----------chHHHHHHHHHHHHHhccHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHHhHH
Confidence                       234455666777889999999999999988888888889999999999999999999999999888863

>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=96.71  E-value=0.0072  Score=42.20  Aligned_cols=50  Identities=20%  Similarity=-0.003  Sum_probs=31.8

Q ss_pred             CChhHHHHHHHHHHhcCCCCCchHHHHHHHHHh----ccChHHHHHHHHHHHhcCC
Q 039362          379 GKLDLAEIVGKKLVELQPDHDGRYVGLSNVYAI----FKRWDEARTTREAMETRGV  430 (440)
Q Consensus       379 g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~~  430 (440)
                      .+.++|.++|+++.+.+.  +.....|+..|..    ..+.++|.+++++..+.|.
T Consensus        73 ~d~~~A~~~~~~aa~~g~--~~a~~~Lg~~y~~G~gv~~d~~~A~~~~~~Aa~~G~  126 (133)
T d1klxa_          73 KDLRKAAQYYSKACGLND--QDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGS  126 (133)
T ss_dssp             CCHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC
T ss_pred             hhhHHHHHHHhhhhccCc--chHHHHHHHHHHcCCccCCCHHHHHHHHHHHHHCCC
Confidence            456677777777766553  3355566666655    3467777777777766654

>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=96.49  E-value=0.0049  Score=41.64  Aligned_cols=69  Identities=13%  Similarity=0.132  Sum_probs=39.2

Q ss_pred             CcchHHHHHHHHHhcC---CHHHHHHHHhcC-CCCc-cH-hHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCCc
Q 039362          332 KSEHYACMVDALSRAG---QVTEAYEFICQM-PLEP-TA-SMLGSLLTGCMNHGKLDLAEIVGKKLVELQPDHDG  400 (440)
Q Consensus       332 ~~~~~~~l~~~~~~~~---~~~~a~~~~~~~-~~~p-~~-~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~  400 (440)
                      +..+--....++.+..   +.++++.++++. ...| +. ..+..|..+|.+.|++++|.+.++++++.+|.+..
T Consensus        34 s~qt~F~YAw~Lv~S~~~~d~~~gI~lLe~~~~~~p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~ieP~n~q  108 (124)
T d2pqrb1          34 TIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHERNNKQ  108 (124)
T ss_dssp             CHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHH
T ss_pred             CcchHHHHHHHHHcCCcHHHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHccCCCcHH
Confidence            3334334444555443   345666666665 2233 22 45556666677777777777777777777777653

>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=96.38  E-value=0.065  Score=35.71  Aligned_cols=140  Identities=13%  Similarity=0.012  Sum_probs=79.0

Q ss_pred             HHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCc-hhhHHHHHHHHHhcCCHHH
Q 039362          170 YVKCGDYKEALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDKGLSLT-LPLQTSLIDMYAKCGAIKE  248 (440)
Q Consensus       170 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~  248 (440)
                      +.-.|..++..+++.+...+   .+..-|+.++--....-+-+-..+.++.+-+.- ..+ -.-...++.++...     
T Consensus        12 ~ildG~ve~Gveii~k~~~s---s~~~E~NW~ICNiidt~dC~~v~~~Ld~IG~~F-Dls~C~Nlk~vv~C~~~~-----   82 (161)
T d1wy6a1          12 FLLDGYIDEGVKIVLEITKS---STKSEYNWFICNLLESIDCRYMFQVLDKIGSYF-DLDKCQNLKSVVECGVIN-----   82 (161)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH---SCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGGS-CGGGCSCTHHHHHHHHHT-----
T ss_pred             HHHhhhHHhHHHHHHHHccc---CCccccceeeeecccccchHHHHHHHHHHhhhc-CchhhhcHHHHHHHHHHh-----
Confidence            34456667777776666543   234445555544444455555555555443321 111 01112233333322     


Q ss_pred             HHHHHhhhhhcCCchhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHhhcC
Q 039362          249 ALIVFHGVEKHQSDVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKRG  328 (440)
Q Consensus       249 A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  328 (440)
                                 ..+...++..+..+...|+-+.-.+++..+.+.+ .|++.....+..+|.+.|...++-+++.++.+.|
T Consensus        83 -----------n~~se~vdlALd~lv~~~kkd~Ld~i~~~l~kn~-~i~~~~llkia~A~kkig~~re~nell~~ACe~G  150 (161)
T d1wy6a1          83 -----------NTLNEHVNKALDILVIQGKRDKLEEIGREILKNN-EVSASILVAIANALRRVGDERDATTLLIEACKKG  150 (161)
T ss_dssp             -----------TCCCHHHHHHHHHHHHTTCHHHHHHHHHHHC--C-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT
T ss_pred             -----------cchHHHHHHHHHHHHHhccHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHHh
Confidence                       2234445555666777777777777777766544 6666777777778888888888888888777776


Q ss_pred             CC
Q 039362          329 MV  330 (440)
Q Consensus       329 ~~  330 (440)
                      ++
T Consensus       151 ~K  152 (161)
T d1wy6a1         151 EK  152 (161)
T ss_dssp             CH
T ss_pred             HH
Confidence            53

>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=96.21  E-value=0.03  Score=38.86  Aligned_cols=111  Identities=8%  Similarity=-0.047  Sum_probs=58.2

Q ss_pred             ChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHHHHHh----cCCHHHHH
Q 039362          278 FVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVDALSR----AGQVTEAY  353 (440)
Q Consensus       278 ~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~  353 (440)
                      ++++|++.|++..+.|. +  .....|.  .....+.++|..++++..+.|   +......|...|..    ..+.++|.
T Consensus         8 d~~~A~~~~~kaa~~g~-~--~a~~~l~--~~~~~~~~~a~~~~~~aa~~g---~~~a~~~Lg~~y~~g~~~~~d~~~A~   79 (133)
T d1klxa_           8 DLKKAIQYYVKACELNE-M--FGCLSLV--SNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKAA   79 (133)
T ss_dssp             HHHHHHHHHHHHHHTTC-T--THHHHHH--TCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHH
T ss_pred             CHHHHHHHHHHHHHCCC-h--hhhhhhc--cccccCHHHHHHHHhhhhccc---chhhhhhHHHhhhhccccchhhHHHH
Confidence            45556666666555541 1  1111221  123345666666666666654   33334444444443    34566777


Q ss_pred             HHHhcCCCCccHhHHHHHHHHHHh----cCChhHHHHHHHHHHhcCC
Q 039362          354 EFICQMPLEPTASMLGSLLTGCMN----HGKLDLAEIVGKKLVELQP  396 (440)
Q Consensus       354 ~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~~  396 (440)
                      ++|++.--.-++.....|...|..    ..+.++|.++|+++.+.+.
T Consensus        80 ~~~~~aa~~g~~~a~~~Lg~~y~~G~gv~~d~~~A~~~~~~Aa~~G~  126 (133)
T d1klxa_          80 QYYSKACGLNDQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGS  126 (133)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC
T ss_pred             HHHhhhhccCcchHHHHHHHHHHcCCccCCCHHHHHHHHHHHHHCCC
Confidence            777766111233334445444443    4577788888888877664

>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=95.13  E-value=0.21  Score=33.43  Aligned_cols=70  Identities=11%  Similarity=-0.058  Sum_probs=42.1

Q ss_pred             CCHHHHHHHHHHHHhcC---ChHHHHHHHHHHHHcCCCCc-hhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCCch
Q 039362          193 ANEVTLVSVLCACAHLG---ALDQGRMMLRYMIDKGLSLT-LPLQTSLIDMYAKCGAIKEALIVFHGVEKHQSDV  263 (440)
Q Consensus       193 ~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~  263 (440)
                      |+..+-.....++.+..   +.++++.+++.+.+.+ +.+ ...+-.|.-+|.+.|++++|.+.++.+.+..|+.
T Consensus        33 ~s~qt~F~YAw~Lv~S~~~~d~~~gI~lLe~~~~~~-p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~ieP~n  106 (124)
T d2pqrb1          33 ATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEA-ESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHERNN  106 (124)
T ss_dssp             SCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHC-GGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTC
T ss_pred             CCcchHHHHHHHHHcCCcHHHHHHHHHHHHHHHhcC-chhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHccCCCc
Confidence            44444444455555443   4456777777776654 333 2344566667777777777777777777666643

>d1qsaa1 a.118.5.1 (A:1-450) 70 KDa soluble lytic transglycosylase (SLT70), superhelical domain {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Bacterial muramidases
family: Bacterial muramidases
domain: 70 KDa soluble lytic transglycosylase (SLT70), superhelical domain
species: Escherichia coli [TaxId: 562]

Probab=92.58  E-value=2.6  Score=35.67  Aligned_cols=356  Identities=10%  Similarity=-0.027  Sum_probs=195.8

Q ss_pred             CChhhHHHHhhhcCC-C-ChHHHHHHHHHHHccCChhhHHHHHHHHHHcCCCCCcchHHHHHHHhhchhcHHHHHHHHHH
Q 039362           11 GNIDYSCKVLSHLSN-P-RIFYWNTVIRGYSKSKNPNKSISLFVKMLRAGVSPDHLTYPFLAKASGRLAKRELAVAVHAQ   88 (440)
Q Consensus        11 g~~~~A~~~~~~~~~-~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~   88 (440)
                      ...++...+++.-+. | ....-...+..+.+.+++...+..+.     ..+++...-.....+....|+.+.|...+..
T Consensus        53 ~~~~~i~~Fl~~~p~~P~~~~lr~~~l~~L~~~~~w~~~~~~~~-----~~p~~~~~~c~~~~A~~~~g~~~~a~~~~~~  127 (450)
T d1qsaa1          53 QPAVTVTNFVRANPTLPPARTLQSRFVNELARREDWRGLLAFSP-----EKPGTTEAQCNYYYAKWNTGQSEEAWQGAKE  127 (450)
T ss_dssp             CCHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHTTCHHHHHHHCC-----SCCSSHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHCCCChhHHHHHHHHHHHHHhccCHHHHHHhcc-----CCCCCHHHHHHHHHHHHHcCChHHHHHHHHH
Confidence            345556666665542 2 11223334556667777655443221     1222333333455555666666666655554


Q ss_pred             HHHcCC-----------------CCcHHHHHHHHHHHHhcCCHHHHHHHhhCCCCCchhhHHHHHHHHHhcCChHHHHHH
Q 039362           89 IAKTGY-----------------ESDLFISNSLIHMYGSCGDIVYAREVFDGMPTKMSVSWNSMLDGYAKCGEMNMARQV  151 (440)
Q Consensus        89 ~~~~~~-----------------~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  151 (440)
                      +-..|.                 ..+...+-.-+......|+...|..+...+...........+.....   ...+...
T Consensus       128 lW~~~~~~p~~c~~l~~~~~~~~~lt~~~~~~R~~~~l~~~~~~~a~~l~~~l~~~~~~~~~a~~~l~~~---p~~~~~~  204 (450)
T d1qsaa1         128 LWLTGKSQPNACDKLFSVWRASGKQDPLAYLERIRLAMKAGNTGLVTVLAGQMPADYQTIASAIISLANN---PNTVLTF  204 (450)
T ss_dssp             HHSCSSCCCTHHHHHHHHHHHTTCSCHHHHHHHHHHHHHTTCHHHHHHHHHTCCGGGHHHHHHHHHHHHC---GGGHHHH
T ss_pred             HHhcCCCCchHHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCChhhHHHHHhhCChhHHHHHHHHHHHHhC---hHhHHHH
Confidence            443331                 12333333444555566777777777777765544444555544433   2333333


Q ss_pred             HhhCCCCchhhHHHHHHHHHh--cCCHHHHHHHHHHHHhcCCCCCHHHHHHHH----HHHHhcCChHHHHHHHHHHHHcC
Q 039362          152 FELMPERNVVSWSALIDGYVK--CGDYKEALVIFEEMRDVGSKANEVTLVSVL----CACAHLGALDQGRMMLRYMIDKG  225 (440)
Q Consensus       152 ~~~~~~~~~~~~~~l~~~~~~--~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~----~~~~~~~~~~~a~~~~~~~~~~~  225 (440)
                      ..... .+......+..++.+  ..+.+.+...+....... ..+......+-    ......+..+.+...+......+
T Consensus       205 ~~~~~-~~~~~~~~~~~~l~rla~~d~~~a~~~l~~~~~~~-~~~~~~~~~~~~~~a~~~~~~~~~~~a~~~~~~~~~~~  282 (450)
T d1qsaa1         205 ARTTG-ATDFTRQMAAVAFASVARQDAENARLMIPSLAQAQ-QLNEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIMRS  282 (450)
T ss_dssp             HHHSC-CCHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHT-TCCHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHHTC
T ss_pred             HhcCC-CChhhhHHHHHHHHHHhccChhHHHHHHHhhhhcc-cccHHHHHHHHHHHHHHHHHcCchHHHHHHHHhhcccc
Confidence            33332 222222222223222  357888988888876543 22222222222    22234566778888877776554


Q ss_pred             CCCchhhHHHHHHHHHhcCCHHHHHHHHhhhhhcCC-chhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHhhHHHH
Q 039362          226 LSLTLPLQTSLIDMYAKCGAIKEALIVFHGVEKHQS-DVLIWNAMIGGLAMHGFVKESLELFTEMQIVGITPDEITFLGL  304 (440)
Q Consensus       226 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l  304 (440)
                        .+.......+......+++..+...+..+..... .....-=+..++...|+.+.|...|..+..   .+   +|..+
T Consensus       283 --~~~~~~~w~~~~al~~~~~~~~~~~~~~l~~~~~~~~r~~YW~gRa~~~~G~~~~A~~~~~~~a~---~~---~fYG~  354 (450)
T d1qsaa1         283 --QSTSLIERRVRMALGTGDRRGLNTWLARLPMEAKEKDEWRYWQADLLLERGREAEAKEILHQLMQ---QR---GFYPM  354 (450)
T ss_dssp             --CCHHHHHHHHHHHHHHTCHHHHHHHHHHSCTTGGGSHHHHHHHHHHHHHTTCHHHHHHHHHHHHT---SC---SHHHH
T ss_pred             --cchHHHHHHHHHHHHcCChHHHHHHHHhcCcccccHHHHHHHHHHHHHHcCChhhHHHHHHHHhc---CC---ChHHH
Confidence              3444444455556778999999999998864322 233345567788899999999999998863   23   34444


Q ss_pred             HHHHHcCCChHHHHHHHHHHhhcCCCC-Ccch-----HHHHHHHHHhcCCHHHHHHHHhcCCCCccHhHHHHHHHHHHhc
Q 039362          305 LSACAHGGLVMEAWYFFKSLGKRGMVP-KSEH-----YACMVDALSRAGQVTEAYEFICQMPLEPTASMLGSLLTGCMNH  378 (440)
Q Consensus       305 ~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~-----~~~l~~~~~~~~~~~~a~~~~~~~~~~p~~~~~~~l~~~~~~~  378 (440)
                      +.+- +.|..-.       +-...+.+ ....     -...+..+...|+...|...+..+.-..+......+.....+.
T Consensus       355 LAa~-~Lg~~~~-------~~~~~~~~~~~~~~~~~~~~~ra~~L~~~g~~~~A~~e~~~l~~~~~~~~~~~la~lA~~~  426 (450)
T d1qsaa1         355 VAAQ-RIGEEYE-------LKIDKAPQNVDSALTQGPEMARVRELMYWNLDNTARSEWANLVKSKSKTEQAQLARYAFNN  426 (450)
T ss_dssp             HHHH-HTTCCCC-------CCCCCCCSCCCCHHHHSHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHT
T ss_pred             HHHH-HcCCCCC-------CCcCCCCccHHHhhhcChHHHHHHHHHHcCCchHHHHHHHHHHhCCCHHHHHHHHHHHHHC
Confidence            4332 2232100       00000001 1111     1134567788999999999887762233455666777878899


Q ss_pred             CChhHHHHHHHHHH
Q 039362          379 GKLDLAEIVGKKLV  392 (440)
Q Consensus       379 g~~~~a~~~~~~~~  392 (440)
                      |.++.|+....++.
T Consensus       427 g~~~~aI~a~~~~~  440 (450)
T d1qsaa1         427 QWWDLSVQATIAGK  440 (450)
T ss_dssp             TCHHHHHHHHHHTT
T ss_pred             CChhHHHHHHHHHH
Confidence            99999998877764

>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=91.41  E-value=0.8  Score=28.74  Aligned_cols=47  Identities=17%  Similarity=0.170  Sum_probs=26.3

Q ss_pred             HHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 039362          178 EALVIFEEMRDVGSKANEVTLVSVLCACAHLGALDQGRMMLRYMIDK  224 (440)
Q Consensus       178 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  224 (440)
                      ++.+-++.+....+.|++......+++|.+.+++..|.++++.+...
T Consensus        24 e~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~K   70 (105)
T d1v54e_          24 ELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK   70 (105)
T ss_dssp             HHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH
Confidence            34444455555555556666666666666666666666666555443

>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=91.17  E-value=1  Score=28.19  Aligned_cols=63  Identities=14%  Similarity=0.137  Sum_probs=49.5

Q ss_pred             ChHHHHHHHHHHHHcCCCccHhhHHHHHHHHHcCCChHHHHHHHHHHhhcCCCCCcchHHHHHH
Q 039362          278 FVKESLELFTEMQIVGITPDEITFLGLLSACAHGGLVMEAWYFFKSLGKRGMVPKSEHYACMVD  341 (440)
Q Consensus       278 ~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  341 (440)
                      +.-++.+-+..+....+.|++......+++|.+.+++..|.++|+-++.+ ..++...|..+++
T Consensus        21 D~we~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~K-~~~~k~~y~yilq   83 (105)
T d1v54e_          21 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK-AGPHKEIYPYVIQ   83 (105)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-TTTCTTHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH-hcCcHHHHHHHHH
Confidence            44567777777777788999999999999999999999999999988765 2345667776654