Psyllid ID: psy20

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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-------
Protein Sequence
MSGRSKRGATPAKTPSASRGSSSRQTSEVREEPPQPQPQSQPPRPGSPLSPTIISRRQEKNELKNLNDRLAQYIELVQKLQNDKASLEYSLYSIEESHTTEFKKVKAASEKEIEDIRKALDRESSSKSALAIEKRRLLDELLDLKNK
Secondary Structure (PSIPRED)
ccccccccccccccccccccccccccccccccccccccccccccccccccccHHcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc
Secondary Structure Prediction (SSPRO)
ccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc
Coil and Loop (DISEMBL)
msgrskrgatpaktpsasrgsssrqtsevreeppqpqpqsqpprpgsplsptiISRRQEKNELKNLNDRLAQYIELVQKLQNDKASLEYSLYSIEESHTTEFKKVKAASEKEIEDIRKALDRESSSKSALAIEKRRLLDELLDLKNK
Flexible Loop (DISEMBL)
msgrskrgatpaktpsasrgsssrqtSEVReeppqpqpqsqpprpgsPLSPTIISRRQEKNELKNLNDRLAQYIELVQKLQNDKASLEYSLYSieeshttefkkvkaaseKEIEDIRkaldresssksalaiekrrlldelldlknk
Low Complexity Region (SEG)
MSGRSKRGATPAKTPsasrgsssrqtsEVREEppqpqpqsqpprpgsplspTIISRRQEKNELKNLNDRLAQYIELVQKLQNDKAsleyslysieesHTTEFKKVKAASEKEIEDIRKALDRESSSKSALAIekrrlldelldlkNK
Disordered region (IsUnstruct)
********************************************************************RLAQYIELVQKLQNDKASLEYSLYSI*****************************************************
Disordered Region (DISOPRED)
***********************************************************KNELKNLNDRLAQYIELVQKLQNDKASLEYSLY***************ASEKEIEDIRKALDRESSSKSALAIEKRRLLDELLDLKN*
Disordered Region (DISEMBL)
************************************************LSPTIISRRQEKNELKNLNDRLAQYIELVQKLQNDKASLEYSLYSIEESHTTEFKKVKAASEKEIEDIRKALDRESSSKSALAIEKRRLLDELLDLKNK
Disordered Region (DISPRO)
**************************************************PTIISRRQEKNELKNLNDRLAQYIELVQKLQNDKASLEYSLYSIEESHTTEFKKVKAASEKEIEDIRKALDRESSSKSALAIEKRRLLDELLDLKN*
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooo
TM Helix, Signal Peptide (Phobius)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MSGRSKRGATPAKTPSASRGSSSRQTSEVREEPPQPQPQSQPPRPGSPLSPTIISxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxLYSIEESHTTEFKKVKAASEKEIEDIRKALDRESSSxxxxxxxxxxxxxxxxxxxxx
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	147	2.2.26 [Sep-21-2011]
P70615	587	Lamin-B1 OS=Rattus norveg	yes	N/A	0.687	0.172	0.405	6e-13
P48679	665	Prelamin-A/C OS=Rattus no	no	N/A	0.727	0.160	0.401	6e-13
P20700	586	Lamin-B1 OS=Homo sapiens	yes	N/A	0.687	0.172	0.415	7e-13
P14733	588	Lamin-B1 OS=Mus musculus	yes	N/A	0.673	0.168	0.414	2e-12
P02545	664	Prelamin-A/C OS=Homo sapi	no	N/A	0.673	0.149	0.414	3e-12
Q03427	621	Lamin-C OS=Drosophila mel	yes	N/A	0.721	0.170	0.425	3e-12
P48678	665	Prelamin-A/C OS=Mus muscu	no	N/A	0.673	0.148	0.414	5e-12
Q03252	600	Lamin-B2 OS=Homo sapiens	no	N/A	0.646	0.158	0.454	6e-12
Q3ZD69	664	Prelamin-A/C OS=Sus scrof	no	N/A	0.673	0.149	0.404	1e-11
P13648	657	Lamin-A OS=Gallus gallus	no	N/A	0.673	0.150	0.414	2e-11

>sp|P70615|LMNB1_RAT Lamin-B1 OS=Rattus norvegicus GN=Lmnb1 PE=1 SV=3

 Score = 73.2 bits (178), Expect = 6e-13,   Method: Compositional matrix adjust.
 Identities = 41/101 (40%), Positives = 60/101 (59%)

Query: 33  PPQPQPQSQPPRPGSPLSPTIISRRQEKNELKNLNDRLAQYIELVQKLQNDKASLEYSLY 92
           P Q +  S+   P +P SPT +SR QEK EL+ LNDRLA YI+ V+ L+ + ++L+  + 
Sbjct: 6   PVQQRAGSRASAPATPFSPTRLSRLQEKEELRELNDRLAVYIDKVRSLETENSALQLQVT 65

Query: 93  SIEESHTTEFKKVKAASEKEIEDIRKALDRESSSKSALAIE 133
             EE    E   +KA  E E+ D R+ALD  +  ++ L IE
Sbjct: 66  EREEVRGRELTGLKALYETELADARRALDDTARERAKLQIE 106

Lamins are components of the nuclear lamina, a fibrous layer on the nucleoplasmic side of the inner nuclear membrane, which is thought to provide a framework for the nuclear envelope and may also interact with chromatin.
Rattus norvegicus (taxid: 10116)

>sp|P48679|LMNA_RAT Prelamin-A/C OS=Rattus norvegicus GN=Lmna PE=1 SV=1

 Score = 72.8 bits (177), Expect = 6e-13,   Method: Compositional matrix adjust.
 Identities = 45/112 (40%), Positives = 66/112 (58%), Gaps = 5/112 (4%)

Query: 39  QSQPPRPG-----SPLSPTIISRRQEKNELKNLNDRLAQYIELVQKLQNDKASLEYSLYS 93
           Q +P R G     +PLSPT I+R QEK +L+ LNDRLA YI+ V+ L+ + A L   +  
Sbjct: 6   QRRPTRSGAQASSTPLSPTRITRLQEKEDLQELNDRLAVYIDRVRSLETENAGLRLRITE 65

Query: 94  IEESHTTEFKKVKAASEKEIEDIRKALDRESSSKSALAIEKRRLLDELLDLK 145
            EE  + E   +KAA E E+ D RK LD  +  ++ L +E  ++ +E  +LK
Sbjct: 66  SEEVVSREVSGIKAAYEAELGDARKTLDSVAKERARLQLELSKVREEFKELK 117

Prelamin-A/C can accelerate smooth muscle cell senescence. It acts to disrupt mitosis and induce DNA damage in vascular smooth muscle cells (VSMCs), leading to mitotic failure, genomic instability, and premature senescence.

Rattus norvegicus (taxid: 10116)

>sp|P20700|LMNB1_HUMAN Lamin-B1 OS=Homo sapiens GN=LMNB1 PE=1 SV=2

 Score = 72.8 bits (177), Expect = 7e-13,   Method: Compositional matrix adjust.
 Identities = 42/101 (41%), Positives = 61/101 (60%)

Query: 33  PPQPQPQSQPPRPGSPLSPTIISRRQEKNELKNLNDRLAQYIELVQKLQNDKASLEYSLY 92
           P  P+  S+   P +PLSPT +SR QEK EL+ LNDRLA YI+ V+ L+ + ++L+  + 
Sbjct: 6   PVPPRMGSRAGGPTTPLSPTRLSRLQEKEELRELNDRLAVYIDKVRSLETENSALQLQVT 65

Query: 93  SIEESHTTEFKKVKAASEKEIEDIRKALDRESSSKSALAIE 133
             EE    E   +KA  E E+ D R+ALD  +  ++ L IE
Sbjct: 66  EREEVRGRELTGLKALYETELADARRALDDTARERAKLQIE 106

Lamins are components of the nuclear lamina, a fibrous layer on the nucleoplasmic side of the inner nuclear membrane, which is thought to provide a framework for the nuclear envelope and may also interact with chromatin.

Homo sapiens (taxid: 9606)

>sp|P14733|LMNB1_MOUSE Lamin-B1 OS=Mus musculus GN=Lmnb1 PE=1 SV=3

 Score = 71.6 bits (174), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 41/99 (41%), Positives = 60/99 (60%)

Query: 35  QPQPQSQPPRPGSPLSPTIISRRQEKNELKNLNDRLAQYIELVQKLQNDKASLEYSLYSI 94
           Q +  S+   P +PLSPT +SR QEK EL+ LNDRLA YI+ V+ L+ + ++L+  +   
Sbjct: 9   QQRAGSRASAPATPLSPTRLSRLQEKEELRELNDRLAVYIDKVRSLETENSALQLQVTER 68

Query: 95  EESHTTEFKKVKAASEKEIEDIRKALDRESSSKSALAIE 133
           EE    E   +KA  E E+ D R+ALD  +  ++ L IE
Sbjct: 69  EEVRGRELTGLKALYETELADARRALDDTARERAKLQIE 107

Lamins are components of the nuclear lamina, a fibrous layer on the nucleoplasmic side of the inner nuclear membrane, which is thought to provide a framework for the nuclear envelope and may also interact with chromatin.

Mus musculus (taxid: 10090)

>sp|P02545|LMNA_HUMAN Prelamin-A/C OS=Homo sapiens GN=LMNA PE=1 SV=1

 Score = 70.9 bits (172), Expect = 3e-12,   Method: Compositional matrix adjust.
 Identities = 41/99 (41%), Positives = 61/99 (61%)

Query: 47  SPLSPTIISRRQEKNELKNLNDRLAQYIELVQKLQNDKASLEYSLYSIEESHTTEFKKVK 106
           +PLSPT I+R QEK +L+ LNDRLA YI+ V+ L+ + A L   +   EE  + E   +K
Sbjct: 19  TPLSPTRITRLQEKEDLQELNDRLAVYIDRVRSLETENAGLRLRITESEEVVSREVSGIK 78

Query: 107 AASEKEIEDIRKALDRESSSKSALAIEKRRLLDELLDLK 145
           AA E E+ D RK LD  +  ++ L +E  ++ +E  +LK
Sbjct: 79  AAYEAELGDARKTLDSVAKERARLQLELSKVREEFKELK 117

Prelamin-A/C can accelerate smooth muscle cell senescence. It acts to disrupt mitosis and induce DNA damage in vascular smooth muscle cells (VSMCs), leading to mitotic failure, genomic instability, and premature senescence.

Homo sapiens (taxid: 9606)

>sp|Q03427|LAMC_DROME Lamin-C OS=Drosophila melanogaster GN=LamC PE=1 SV=2

 Score = 70.5 bits (171), Expect = 3e-12,   Method: Compositional matrix adjust.
 Identities = 46/108 (42%), Positives = 65/108 (60%), Gaps = 2/108 (1%)

Query: 40  SQPPRPG--SPLSPTIISRRQEKNELKNLNDRLAQYIELVQKLQNDKASLEYSLYSIEES 97
           S   R G  SP SPT  SR+QEK EL++LNDRLA YI+ ++ L+N+ + L   L   +++
Sbjct: 25  STSSRVGATSPTSPTRTSRQQEKEELQHLNDRLACYIDRMRNLENENSRLTQELNLAQDT 84

Query: 98  HTTEFKKVKAASEKEIEDIRKALDRESSSKSALAIEKRRLLDELLDLK 145
              E   +KA  EKE+   RK LD  +  K+ L I+ +RL +E  DLK
Sbjct: 85  VNRETSNLKAVYEKELAAARKLLDETAKEKAKLEIDIKRLWEENDDLK 132

Lamins are components of the nuclear lamina, a fibrous layer on the nucleoplasmic side of the inner nuclear membrane, which is thought to provide a framework for the nuclear envelope and may also interact with chromatin.

Drosophila melanogaster (taxid: 7227)

>sp|P48678|LMNA_MOUSE Prelamin-A/C OS=Mus musculus GN=Lmna PE=1 SV=2

 Score = 70.1 bits (170), Expect = 5e-12,   Method: Compositional matrix adjust.
 Identities = 41/99 (41%), Positives = 61/99 (61%)

Query: 47  SPLSPTIISRRQEKNELKNLNDRLAQYIELVQKLQNDKASLEYSLYSIEESHTTEFKKVK 106
           +PLSPT I+R QEK +L+ LNDRLA YI+ V+ L+ + A L   +   EE  + E   +K
Sbjct: 19  TPLSPTRITRLQEKEDLQELNDRLAVYIDRVRSLETENAGLRLRITESEEVVSREVSGIK 78

Query: 107 AASEKEIEDIRKALDRESSSKSALAIEKRRLLDELLDLK 145
           AA E E+ D RK LD  +  ++ L +E  ++ +E  +LK
Sbjct: 79  AAYEAELGDARKTLDSVAKERARLQLELSKVREEFKELK 117

Prelamin-A/C can accelerate smooth muscle cell senescence. It acts to disrupt mitosis and induce DNA damage in vascular smooth muscle cells (VSMCs), leading to mitotic failure, genomic instability, and premature senescence.

Mus musculus (taxid: 10090)

>sp|Q03252|LMNB2_HUMAN Lamin-B2 OS=Homo sapiens GN=LMNB2 PE=1 SV=3

 Score = 69.7 bits (169), Expect = 6e-12,   Method: Compositional matrix adjust.
 Identities = 45/99 (45%), Positives = 61/99 (61%), Gaps = 4/99 (4%)

Query: 45  PGSPLSPTIISRRQEKNELKNLNDRLAQYIELVQ--KLQNDKASLEYSLYSIEESHTTEF 102
           P +PLSPT +SR QEK EL+ LNDRLA YI+ V+  +L+ND+  L+ S    EE  T E 
Sbjct: 12  PATPLSPTRLSRLQEKEELRELNDRLAHYIDRVRALELENDRLLLKIS--EKEEVTTREV 69

Query: 103 KKVKAASEKEIEDIRKALDRESSSKSALAIEKRRLLDEL 141
             +KA  E E+ D R+ LD  +  ++ L IE  +L  EL
Sbjct: 70  SGIKALYESELADARRVLDETARERARLQIEIGKLRAEL 108

Lamins are components of the nuclear lamina, a fibrous layer on the nucleoplasmic side of the inner nuclear membrane, which is thought to provide a framework for the nuclear envelope and may also interact with chromatin.

Homo sapiens (taxid: 9606)

>sp|Q3ZD69|LMNA_PIG Prelamin-A/C OS=Sus scrofa GN=LMNA PE=3 SV=1

 Score = 68.9 bits (167), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 40/99 (40%), Positives = 61/99 (61%)

Query: 47  SPLSPTIISRRQEKNELKNLNDRLAQYIELVQKLQNDKASLEYSLYSIEESHTTEFKKVK 106
           +PLSPT I+R QEK +L+ LNDRLA YI+ V+ L+ + A L   +   EE  + E   +K
Sbjct: 19  TPLSPTRITRLQEKEDLQELNDRLAVYIDRVRSLETENAGLRLRITESEEVVSREVSGIK 78

Query: 107 AASEKEIEDIRKALDRESSSKSALAIEKRRLLDELLDLK 145
           +A E E+ D RK LD  +  ++ L +E  ++ +E  +LK
Sbjct: 79  SAYEAELGDARKTLDSVAKERARLQLELSKVREEFKELK 117

Prelamin-A/C can accelerate smooth muscle cell senescence. It acts to disrupt mitosis and induce DNA damage in vascular smooth muscle cells (VSMCs), leading to mitotic failure, genomic instability, and premature senescence.

Sus scrofa (taxid: 9823)

>sp|P13648|LMNA_CHICK Lamin-A OS=Gallus gallus GN=LMNA PE=2 SV=1

 Score = 67.8 bits (164), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 41/99 (41%), Positives = 61/99 (61%)

Query: 47  SPLSPTIISRRQEKNELKNLNDRLAQYIELVQKLQNDKASLEYSLYSIEESHTTEFKKVK 106
           +PLSPT I+R QEK +L+ LNDRLA YI+ V+ L+ + A L   +   EE  + E   +K
Sbjct: 18  TPLSPTRITRLQEKEDLQELNDRLAVYIDKVRSLELENAGLRLRITESEEVVSREVSGIK 77

Query: 107 AASEKEIEDIRKALDRESSSKSALAIEKRRLLDELLDLK 145
           AA E E+ D RK LD  +  ++ L +E  ++ +E  +LK
Sbjct: 78  AAYEAELADARKTLDSVAKERARLQLELSKVREEHKELK 116

Lamins are components of the nuclear lamina, a fibrous layer on the nucleoplasmic side of the inner nuclear membrane, which is thought to provide a framework for the nuclear envelope and may also interact with chromatin.

Gallus gallus (taxid: 9031)

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	147
307169872	604	Lamin-C [Camponotus floridanus]	0.761	0.185	0.460	1e-16
332030883	610	Lamin Dm0 [Acromyrmex echinatior]	0.761	0.183	0.443	5e-16
156544736	603	PREDICTED: lamin Dm0-like isoform 1 [Nas	0.707	0.172	0.461	9e-16
345480744	600	PREDICTED: lamin Dm0-like isoform 2 [Nas	0.707	0.173	0.461	1e-15
328706857	583	PREDICTED: lamin Dm0-like [Acyrthosiphon	0.843	0.212	0.434	4e-15
328785544	597	PREDICTED: lamin Dm0-like [Apis mellifer	0.761	0.187	0.438	1e-14
383850116	599	PREDICTED: lamin Dm0-like [Megachile rot	0.877	0.215	0.394	3e-14
340722208	599	PREDICTED: lamin Dm0-like [Bombus terres	0.877	0.215	0.394	3e-14
307195049	602	Lamin Dm0 [Harpegnathos saltator]	0.653	0.159	0.458	6e-14
350396311	599	PREDICTED: lamin Dm0-like [Bombus impati	0.693	0.170	0.441	1e-13

>gi|307169872|gb|EFN62381.1| Lamin-C [Camponotus floridanus]

 Score = 91.3 bits (225), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 53/115 (46%), Positives = 72/115 (62%), Gaps = 3/115 (2%)

Query: 36  PQPQSQPP---RPGSPLSPTIISRRQEKNELKNLNDRLAQYIELVQKLQNDKASLEYSLY 92
           PQ  S P    RPGSPLSPT  SR QEK +L+NLNDRLA YIE V+ L+ + + L   + 
Sbjct: 36  PQGTSTPIVGRRPGSPLSPTRYSRMQEKQDLQNLNDRLACYIEKVRHLETENSRLTREVQ 95

Query: 93  SIEESHTTEFKKVKAASEKEIEDIRKALDRESSSKSALAIEKRRLLDELLDLKNK 147
           + +E+ T E   +KA  E E+ D RK LD  +  ++ L I+ +RL D+  DLK+K
Sbjct: 96  TTQETVTREVSNIKAMYEHELSDARKLLDETARERAKLEIDTKRLWDDNEDLKSK 150

Source: Camponotus floridanus

Species: Camponotus floridanus

Genus: Camponotus

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|332030883|gb|EGI70519.1| Lamin Dm0 [Acromyrmex echinatior]

 Score = 89.0 bits (219), Expect = 5e-16,   Method: Compositional matrix adjust.
 Identities = 51/115 (44%), Positives = 71/115 (61%), Gaps = 3/115 (2%)

Query: 36  PQPQSQPP---RPGSPLSPTIISRRQEKNELKNLNDRLAQYIELVQKLQNDKASLEYSLY 92
           P P +  P   RPGSPLSPT  SR QEK +L+NLNDRLA YIE V+ L+ + + L   + 
Sbjct: 34  PPPTTSTPIGRRPGSPLSPTRYSRLQEKQDLQNLNDRLACYIEKVRHLETENSRLTREMQ 93

Query: 93  SIEESHTTEFKKVKAASEKEIEDIRKALDRESSSKSALAIEKRRLLDELLDLKNK 147
           + +E+ T E   +KA  E E+ D RK LD  +  ++ L I+ +RL D+  D K+K
Sbjct: 94  TTQETVTREVSSIKAMYEHELSDARKLLDETARERAKLEIDTKRLWDDNEDFKSK 148

Source: Acromyrmex echinatior

Species: Acromyrmex echinatior

Genus: Acromyrmex

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|156544736|ref|XP_001605883.1| PREDICTED: lamin Dm0-like isoform 1 [Nasonia vitripennis]

 Score = 88.2 bits (217), Expect = 9e-16,   Method: Compositional matrix adjust.
 Identities = 48/104 (46%), Positives = 69/104 (66%)

Query: 44  RPGSPLSPTIISRRQEKNELKNLNDRLAQYIELVQKLQNDKASLEYSLYSIEESHTTEFK 103
           RPGSPLSPT  SR QEK +L+NLNDRLA YI+ V+ L+++ + L   + + +E+ T E  
Sbjct: 36  RPGSPLSPTRYSRLQEKQDLQNLNDRLACYIDKVRHLESENSRLTREVQTSQETVTREIS 95

Query: 104 KVKAASEKEIEDIRKALDRESSSKSALAIEKRRLLDELLDLKNK 147
            +K+  E E+ D RK LD  +  ++ L I+ +RL D+  DLKNK
Sbjct: 96  NIKSMYEHELSDARKLLDETARERAKLEIDTKRLWDDNEDLKNK 139

Source: Nasonia vitripennis

Species: Nasonia vitripennis

Genus: Nasonia

Family: Pteromalidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|345480744|ref|XP_003424206.1| PREDICTED: lamin Dm0-like isoform 2 [Nasonia vitripennis]

 Score = 88.2 bits (217), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 48/104 (46%), Positives = 69/104 (66%)

Query: 44  RPGSPLSPTIISRRQEKNELKNLNDRLAQYIELVQKLQNDKASLEYSLYSIEESHTTEFK 103
           RPGSPLSPT  SR QEK +L+NLNDRLA YI+ V+ L+++ + L   + + +E+ T E  
Sbjct: 36  RPGSPLSPTRYSRLQEKQDLQNLNDRLACYIDKVRHLESENSRLTREVQTSQETVTREIS 95

Query: 104 KVKAASEKEIEDIRKALDRESSSKSALAIEKRRLLDELLDLKNK 147
            +K+  E E+ D RK LD  +  ++ L I+ +RL D+  DLKNK
Sbjct: 96  NIKSMYEHELSDARKLLDETARERAKLEIDTKRLWDDNEDLKNK 139

Source: Nasonia vitripennis

Species: Nasonia vitripennis

Genus: Nasonia

Family: Pteromalidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|328706857|ref|XP_001943032.2| PREDICTED: lamin Dm0-like [Acyrthosiphon pisum]

 Score = 86.3 bits (212), Expect = 4e-15,   Method: Compositional matrix adjust.
 Identities = 60/138 (43%), Positives = 81/138 (58%), Gaps = 14/138 (10%)

Query: 17  ASR-GSSSRQTSEVREEPPQPQ------PQSQPPRPGSPLSPTIISRRQEKNELKNLNDR 69
           ASR G ++R T       PQP+        S+  R  + LSPT  SR QEK+EL+NLN+R
Sbjct: 5   ASRKGGAARNT-------PQPEESTASTTNSEKSRRTATLSPTRFSRIQEKHELQNLNNR 57

Query: 70  LAQYIELVQKLQNDKASLEYSLYSIEESHTTEFKKVKAASEKEIEDIRKALDRESSSKSA 129
           LA YI+ V+ L+ + + L   L+S EE  + E   VK   E E+ED+R ALDRE+  KS 
Sbjct: 58  LAAYIDRVKYLETENSKLTQELHSSEEVTSREVSNVKVLFESELEDLRNALDREAKLKSR 117

Query: 130 LAIEKRRLLDELLDLKNK 147
           L +E RR   E+ +LK K
Sbjct: 118 LELESRRKTLEVEELKTK 135

Source: Acyrthosiphon pisum

Species: Acyrthosiphon pisum

Genus: Acyrthosiphon

Family: Aphididae

Order: Hemiptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|328785544|ref|XP_396670.3| PREDICTED: lamin Dm0-like [Apis mellifera] gi|380029157|ref|XP_003698248.1| PREDICTED: lamin Dm0-like [Apis florea]

 Score = 84.7 bits (208), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 50/114 (43%), Positives = 72/114 (63%), Gaps = 2/114 (1%)

Query: 36  PQPQSQP--PRPGSPLSPTIISRRQEKNELKNLNDRLAQYIELVQKLQNDKASLEYSLYS 93
           PQ  S P   RPGSPLSPT  SR QEK +L+NLNDRLA YI+ V+ L+++ + L   + +
Sbjct: 20  PQFTSTPIGQRPGSPLSPTRYSRLQEKQDLQNLNDRLACYIDKVRHLESENSRLTREVQT 79

Query: 94  IEESHTTEFKKVKAASEKEIEDIRKALDRESSSKSALAIEKRRLLDELLDLKNK 147
            +E+ T E   +K+  E E+ D RK LD  +  ++ L I+ +RL D   +LK+K
Sbjct: 80  TQETITREVSNIKSMYEHELSDARKLLDDTAKERAKLEIDTKRLWDNNEELKSK 133

Source: Apis mellifera

Species: Apis mellifera

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|383850116|ref|XP_003700663.1| PREDICTED: lamin Dm0-like [Megachile rotundata]

 Score = 83.2 bits (204), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 54/137 (39%), Positives = 80/137 (58%), Gaps = 8/137 (5%)

Query: 14  TPSASRGSSSRQTSEVREEPPQPQPQSQPP---RPGSPLSPTIISRRQEKNELKNLNDRL 70
           T +A + +S+  TS        PQ  +  P   RPGSPLSPT  SR QEK +L+NLNDRL
Sbjct: 3   TKAAKKSTSTSGTS-----GQSPQFSTSTPIGQRPGSPLSPTRYSRLQEKQDLQNLNDRL 57

Query: 71  AQYIELVQKLQNDKASLEYSLYSIEESHTTEFKKVKAASEKEIEDIRKALDRESSSKSAL 130
           A YI+ V+ L+ + + L   + + +E+ T E   +K+  E E+ D RK LD  +  ++ L
Sbjct: 58  ACYIDKVRHLEAENSRLTREVQTTQETITREVSNIKSMYEHELSDARKLLDDTARERAKL 117

Query: 131 AIEKRRLLDELLDLKNK 147
            I+ +RL D   +LK+K
Sbjct: 118 EIDTKRLWDNNEELKSK 134

Source: Megachile rotundata

Species: Megachile rotundata

Genus: Megachile

Family: Megachilidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|340722208|ref|XP_003399500.1| PREDICTED: lamin Dm0-like [Bombus terrestris]

 Score = 83.2 bits (204), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 54/137 (39%), Positives = 79/137 (57%), Gaps = 8/137 (5%)

Query: 9   ATPAKTPSASRGSSSRQTSEVREEPPQPQPQSQPPRPGSPLSPTIISRRQEKNELKNLND 68
           AT   T ++S G+   Q+S+     P  Q      RPGSPLSPT  SR QEK +L+NLND
Sbjct: 5   ATKKSTAASSSGNV--QSSQFSTSTPIGQ------RPGSPLSPTRYSRLQEKQDLQNLND 56

Query: 69  RLAQYIELVQKLQNDKASLEYSLYSIEESHTTEFKKVKAASEKEIEDIRKALDRESSSKS 128
           RLA YI+ V+ L+ + + L   + + +E+ T E   +K+  E E+ D RK LD  +  ++
Sbjct: 57  RLACYIDKVRHLETENSRLTREVQTTQETITREVSNIKSMYEHELSDARKLLDDTARERA 116

Query: 129 ALAIEKRRLLDELLDLK 145
            L I+ +RL D   +LK
Sbjct: 117 KLEIDTKRLWDNNEELK 133

Source: Bombus terrestris

Species: Bombus terrestris

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307195049|gb|EFN77107.1| Lamin Dm0 [Harpegnathos saltator]

 Score = 82.4 bits (202), Expect = 6e-14,   Method: Compositional matrix adjust.
 Identities = 44/96 (45%), Positives = 63/96 (65%)

Query: 44  RPGSPLSPTIISRRQEKNELKNLNDRLAQYIELVQKLQNDKASLEYSLYSIEESHTTEFK 103
           RPGSPLSPT  SR QEK +L+NLNDRLA YIE V+ L+ + + L   + + +E+ T E  
Sbjct: 52  RPGSPLSPTRYSRLQEKQDLQNLNDRLACYIEKVRHLETENSRLTREVQTTQETVTREVS 111

Query: 104 KVKAASEKEIEDIRKALDRESSSKSALAIEKRRLLD 139
            +K+  E E+ D RK LD  +  ++ L I+ +RLL+
Sbjct: 112 NIKSMYEHELSDARKLLDETARERAKLEIDTKRLLE 147

Source: Harpegnathos saltator

Species: Harpegnathos saltator

Genus: Harpegnathos

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|350396311|ref|XP_003484509.1| PREDICTED: lamin Dm0-like [Bombus impatiens]

 Score = 81.3 bits (199), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 45/102 (44%), Positives = 65/102 (63%)

Query: 44  RPGSPLSPTIISRRQEKNELKNLNDRLAQYIELVQKLQNDKASLEYSLYSIEESHTTEFK 103
           RPGSPLSPT  SR QEK +L+NLNDRLA YI+ V+ L+ + + L   + + +E+ T E  
Sbjct: 32  RPGSPLSPTRYSRLQEKQDLQNLNDRLACYIDKVRHLETENSRLTREVQTTQETITREVS 91

Query: 104 KVKAASEKEIEDIRKALDRESSSKSALAIEKRRLLDELLDLK 145
            +K+  E E+ D RK LD  +  ++ L I+ +RL D   +LK
Sbjct: 92  NIKSMYEHELSDARKLLDDTARERAKLEIDTKRLWDNNEELK 133

Source: Bombus impatiens

Species: Bombus impatiens

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

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	147
UNIPROTKB|P13648	657	LMNA "Lamin-A" [Gallus gallus	0.551	0.123	0.370	2.3e-08
ZFIN|ZDB-GENE-020424-3	659	lmna "lamin A" [Danio rerio (t	0.551	0.122	0.395	5.2e-08
ZFIN|ZDB-GENE-020424-4	584	lmnl3 "lamin L3" [Danio rerio	0.551	0.138	0.370	7.2e-08
FB|FBgn0010397	621	LamC "Lamin C" [Drosophila mel	0.551	0.130	0.382	7.8e-08
UNIPROTKB|E9PBF6	387	LMNB1 "Lamin-B1" [Homo sapiens	0.551	0.209	0.370	1.6e-07
UNIPROTKB|Q6UYC3	614	LMNA "Progerin" [Homo sapiens	0.551	0.131	0.370	2.1e-07
UNIPROTKB|F1MYG5	664	LMNA "Uncharacterized protein"	0.551	0.121	0.370	2.3e-07
UNIPROTKB|P02545	664	LMNA "Prelamin-A/C" [Homo sapi	0.551	0.121	0.370	2.3e-07
UNIPROTKB|F1PBJ3	665	LMNA "Uncharacterized protein"	0.551	0.121	0.370	2.3e-07
MGI|MGI:96794	665	Lmna "lamin A" [Mus musculus (	0.551	0.121	0.370	2.3e-07

UNIPROTKB|P13648 LMNA "Lamin-A" [Gallus gallus (taxid:9031)]

 Score = 127 (49.8 bits), Expect = 2.3e-08, Sum P(2) = 2.3e-08
 Identities = 30/81 (37%), Positives = 44/81 (54%)

Query:    52 TIISRRQEKNELKNLNDRLAQYIELVQKLQNDKAXXXXXXXXXXXXHTTEFKKVKAASEK 111
             T I+R QEK +L+ LNDRLA YI+ V+ L+ + A             + E   +KAA E 
Sbjct:    23 TRITRLQEKEDLQELNDRLAVYIDKVRSLELENAGLRLRITESEEVVSREVSGIKAAYEA 82

Query:   112 EIEDIRKALDRESSSKSALAI 132
             E+ D RK LD  +  ++ L +
Sbjct:    83 ELADARKTLDSVAKERARLQL 103

GO:0005198 "structural molecule activity" evidence=IEA

GO:0005882 "intermediate filament" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

ZFIN|ZDB-GENE-020424-3 lmna "lamin A" [Danio rerio (taxid:7955)]

 Score = 135 (52.6 bits), Expect = 5.2e-08, P = 5.2e-08
 Identities = 32/81 (39%), Positives = 44/81 (54%)

Query:    52 TIISRRQEKNELKNLNDRLAQYIELVQKLQNDKAXXXXXXXXXXXXHTTEFKKVKAASEK 111
             T ISR QEK +L NLNDRLA YI+ V+ L+ + A             + E   +KAA E 
Sbjct:    21 TRISRLQEKEDLSNLNDRLAVYIDKVRSLEVENAGLRMRITESETEISRELSGMKAAYEA 80

Query:   112 EIEDIRKALDRESSSKSALAI 132
             E+ D RK LD  +  ++ L +
Sbjct:    81 ELADARKTLDSVAKERARLQL 101

GO:0005198 "structural molecule activity" evidence=IEA

GO:0060047 "heart contraction" evidence=IMP

GO:0090342 "regulation of cell aging" evidence=IMP

GO:0005882 "intermediate filament" evidence=IEA

ZFIN|ZDB-GENE-020424-4 lmnl3 "lamin L3" [Danio rerio (taxid:7955)]

 Score = 133 (51.9 bits), Expect = 7.2e-08, P = 7.2e-08
 Identities = 30/81 (37%), Positives = 45/81 (55%)

Query:    52 TIISRRQEKNELKNLNDRLAQYIELVQKLQNDKAXXXXXXXXXXXXHTTEFKKVKAASEK 111
             T ++R QEK +L+ LNDRLA YIE V++L+ DK+               E   V+   E 
Sbjct:    33 TRLTRLQEKEDLRQLNDRLANYIERVRQLEADKSSMQILLEEKEESSLREVGNVRRLYES 92

Query:   112 EIEDIRKALDRESSSKSALAI 132
             E+ D RK+LD  ++ ++ L I
Sbjct:    93 ELADARKSLDATANERARLQI 113

GO:0005198 "structural molecule activity" evidence=IEA

GO:0005882 "intermediate filament" evidence=IEA

FB|FBgn0010397 LamC "Lamin C" [Drosophila melanogaster (taxid:7227)]

 Score = 133 (51.9 bits), Expect = 7.8e-08, P = 7.8e-08
 Identities = 31/81 (38%), Positives = 44/81 (54%)

Query:    52 TIISRRQEKNELKNLNDRLAQYIELVQKLQNDKAXXXXXXXXXXXXHTTEFKKVKAASEK 111
             T  SR+QEK EL++LNDRLA YI+ ++ L+N+ +               E   +KA  EK
Sbjct:    39 TRTSRQQEKEELQHLNDRLACYIDRMRNLENENSRLTQELNLAQDTVNRETSNLKAVYEK 98

Query:   112 EIEDIRKALDRESSSKSALAI 132
             E+   RK LD  +  K+ L I
Sbjct:    99 ELAAARKLLDETAKEKAKLEI 119

GO:0005652 "nuclear lamina" evidence=IDA

GO:0005638 "lamin filament" evidence=ISS;NAS;IDA

GO:0007084 "mitotic nuclear envelope reassembly" evidence=ISS

GO:0005635 "nuclear envelope" evidence=IDA

GO:0070732 "spindle envelope" evidence=IDA

GO:0031081 "nuclear pore distribution" evidence=IMP

GO:0030833 "regulation of actin filament polymerization" evidence=IMP

GO:0006342 "chromatin silencing" evidence=IDA

GO:0005198 "structural molecule activity" evidence=IMP

GO:0034399 "nuclear periphery" evidence=IDA

GO:0060415 "muscle tissue morphogenesis" evidence=IMP

GO:0035989 "tendon development" evidence=IMP

UNIPROTKB|E9PBF6 LMNB1 "Lamin-B1" [Homo sapiens (taxid:9606)]

 Score = 127 (49.8 bits), Expect = 1.6e-07, P = 1.6e-07
 Identities = 30/81 (37%), Positives = 43/81 (53%)

Query:    52 TIISRRQEKNELKNLNDRLAQYIELVQKLQNDKAXXXXXXXXXXXXHTTEFKKVKAASEK 111
             T +SR QEK EL+ LNDRLA YI+ V+ L+ + +               E   +KA  E 
Sbjct:    25 TRLSRLQEKEELRELNDRLAVYIDKVRSLETENSALQLQVTEREEVRGRELTGLKALYET 84

Query:   112 EIEDIRKALDRESSSKSALAI 132
             E+ D R+ALD  +  ++ L I
Sbjct:    85 ELADARRALDDTARERAKLQI 105

GO:0005198 "structural molecule activity" evidence=IEA

GO:0005635 "nuclear envelope" evidence=IEA

GO:0005638 "lamin filament" evidence=IEA

GO:0005654 "nucleoplasm" evidence=IEA

GO:0043274 "phospholipase binding" evidence=IEA

UNIPROTKB|Q6UYC3 LMNA "Progerin" [Homo sapiens (taxid:9606)]

 Score = 129 (50.5 bits), Expect = 2.1e-07, P = 2.1e-07
 Identities = 30/81 (37%), Positives = 44/81 (54%)

Query:    52 TIISRRQEKNELKNLNDRLAQYIELVQKLQNDKAXXXXXXXXXXXXHTTEFKKVKAASEK 111
             T I+R QEK +L+ LNDRLA YI+ V+ L+ + A             + E   +KAA E 
Sbjct:    24 TRITRLQEKEDLQELNDRLAVYIDRVRSLETENAGLRLRITESEEVVSREVSGIKAAYEA 83

Query:   112 EIEDIRKALDRESSSKSALAI 132
             E+ D RK LD  +  ++ L +
Sbjct:    84 ELGDARKTLDSVAKERARLQL 104

GO:0005198 "structural molecule activity" evidence=IEA

GO:0005882 "intermediate filament" evidence=IEA

GO:0005634 "nucleus" evidence=IDA

GO:0005737 "cytoplasm" evidence=IDA

UNIPROTKB|F1MYG5 LMNA "Uncharacterized protein" [Bos taurus (taxid:9913)]

 Score = 129 (50.5 bits), Expect = 2.3e-07, P = 2.3e-07
 Identities = 30/81 (37%), Positives = 44/81 (54%)

Query:    52 TIISRRQEKNELKNLNDRLAQYIELVQKLQNDKAXXXXXXXXXXXXHTTEFKKVKAASEK 111
             T I+R QEK +L+ LNDRLA YI+ V+ L+ + A             + E   +KAA E 
Sbjct:    24 TRITRLQEKEDLQELNDRLAVYIDRVRSLETENAGLRLRITESEEVVSREVSGIKAAYEA 83

Query:   112 EIEDIRKALDRESSSKSALAI 132
             E+ D RK LD  +  ++ L +
Sbjct:    84 ELGDARKTLDSVAKERARLQL 104

GO:0090343 "positive regulation of cell aging" evidence=IEA

GO:0071456 "cellular response to hypoxia" evidence=IEA

GO:0055015 "ventricular cardiac muscle cell development" evidence=IEA

GO:0048471 "perinuclear region of cytoplasm" evidence=IEA

GO:0042981 "regulation of apoptotic process" evidence=IEA

GO:0035105 "sterol regulatory element binding protein import into nucleus" evidence=IEA

GO:0030951 "establishment or maintenance of microtubule cytoskeleton polarity" evidence=IEA

GO:0030334 "regulation of cell migration" evidence=IEA

GO:0007517 "muscle organ development" evidence=IEA

GO:0006998 "nuclear envelope organization" evidence=IEA

GO:0005638 "lamin filament" evidence=IEA

GO:0005635 "nuclear envelope" evidence=IEA

GO:0005198 "structural molecule activity" evidence=IEA

UNIPROTKB|P02545 LMNA "Prelamin-A/C" [Homo sapiens (taxid:9606)]

 Score = 129 (50.5 bits), Expect = 2.3e-07, P = 2.3e-07
 Identities = 30/81 (37%), Positives = 44/81 (54%)

Query:    52 TIISRRQEKNELKNLNDRLAQYIELVQKLQNDKAXXXXXXXXXXXXHTTEFKKVKAASEK 111
             T I+R QEK +L+ LNDRLA YI+ V+ L+ + A             + E   +KAA E 
Sbjct:    24 TRITRLQEKEDLQELNDRLAVYIDRVRSLETENAGLRLRITESEEVVSREVSGIKAAYEA 83

Query:   112 EIEDIRKALDRESSSKSALAI 132
             E+ D RK LD  +  ++ L +
Sbjct:    84 ELGDARKTLDSVAKERARLQL 104

GO:0005198 "structural molecule activity" evidence=IEA;TAS

GO:0005638 "lamin filament" evidence=IEA;TAS

GO:0006998 "nuclear envelope organization" evidence=IEA

GO:0035105 "sterol regulatory element binding protein import into nucleus" evidence=IEA

GO:0055015 "ventricular cardiac muscle cell development" evidence=IEA

GO:0005635 "nuclear envelope" evidence=IDA;TAS

GO:0007517 "muscle organ development" evidence=IMP

GO:0048471 "perinuclear region of cytoplasm" evidence=IDA

GO:0005882 "intermediate filament" evidence=TAS

GO:0005652 "nuclear lamina" evidence=TAS

GO:0005515 "protein binding" evidence=IPI

GO:0090343 "positive regulation of cell aging" evidence=IDA

GO:0071456 "cellular response to hypoxia" evidence=IEP

GO:0005634 "nucleus" evidence=IDA

GO:0034504 "protein localization to nucleus" evidence=ISS

GO:0005654 "nucleoplasm" evidence=TAS

GO:0006915 "apoptotic process" evidence=TAS

GO:0006921 "cellular component disassembly involved in execution phase of apoptosis" evidence=TAS

GO:0006987 "activation of signaling protein activity involved in unfolded protein response" evidence=TAS

GO:0030968 "endoplasmic reticulum unfolded protein response" evidence=TAS

GO:0030951 "establishment or maintenance of microtubule cytoskeleton polarity" evidence=ISS

GO:0042981 "regulation of apoptotic process" evidence=ISS

GO:0030334 "regulation of cell migration" evidence=ISS

GO:0005737 "cytoplasm" evidence=IDA

UNIPROTKB|F1PBJ3 LMNA "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 129 (50.5 bits), Expect = 2.3e-07, P = 2.3e-07
 Identities = 30/81 (37%), Positives = 44/81 (54%)

Query:    52 TIISRRQEKNELKNLNDRLAQYIELVQKLQNDKAXXXXXXXXXXXXHTTEFKKVKAASEK 111
             T I+R QEK +L+ LNDRLA YI+ V+ L+ + A             + E   +KAA E 
Sbjct:    24 TRITRLQEKEDLQELNDRLAVYIDRVRSLETENAGLRLRITESEEVVSREVSGIKAAYEA 83

Query:   112 EIEDIRKALDRESSSKSALAI 132
             E+ D RK LD  +  ++ L +
Sbjct:    84 ELGDARKTLDSVAKERARLQL 104

GO:0090343 "positive regulation of cell aging" evidence=IEA

GO:0071456 "cellular response to hypoxia" evidence=IEA

GO:0055015 "ventricular cardiac muscle cell development" evidence=IEA

GO:0048471 "perinuclear region of cytoplasm" evidence=IEA

GO:0042981 "regulation of apoptotic process" evidence=IEA

GO:0035105 "sterol regulatory element binding protein import into nucleus" evidence=IEA

GO:0030951 "establishment or maintenance of microtubule cytoskeleton polarity" evidence=IEA

GO:0030334 "regulation of cell migration" evidence=IEA

GO:0007517 "muscle organ development" evidence=IEA

GO:0006998 "nuclear envelope organization" evidence=IEA

GO:0005638 "lamin filament" evidence=IEA

GO:0005635 "nuclear envelope" evidence=IEA

GO:0005198 "structural molecule activity" evidence=IEA

MGI|MGI:96794 Lmna "lamin A" [Mus musculus (taxid:10090)]

 Score = 129 (50.5 bits), Expect = 2.3e-07, P = 2.3e-07
 Identities = 30/81 (37%), Positives = 44/81 (54%)

Query:    52 TIISRRQEKNELKNLNDRLAQYIELVQKLQNDKAXXXXXXXXXXXXHTTEFKKVKAASEK 111
             T I+R QEK +L+ LNDRLA YI+ V+ L+ + A             + E   +KAA E 
Sbjct:    24 TRITRLQEKEDLQELNDRLAVYIDRVRSLETENAGLRLRITESEEVVSREVSGIKAAYEA 83

Query:   112 EIEDIRKALDRESSSKSALAI 132
             E+ D RK LD  +  ++ L +
Sbjct:    84 ELGDARKTLDSVAKERARLQL 104

GO:0005198 "structural molecule activity" evidence=IEA

GO:0005515 "protein binding" evidence=IPI

GO:0005634 "nucleus" evidence=ISO;IDA

GO:0005635 "nuclear envelope" evidence=ISO;IDA

GO:0005638 "lamin filament" evidence=IDA

GO:0005882 "intermediate filament" evidence=IEA

GO:0006997 "nucleus organization" evidence=IMP

GO:0006998 "nuclear envelope organization" evidence=IGI

GO:0007517 "muscle organ development" evidence=ISO

GO:0016363 "nuclear matrix" evidence=ISO

GO:0030010 "establishment of cell polarity" evidence=NAS

GO:0030334 "regulation of cell migration" evidence=IMP

GO:0030951 "establishment or maintenance of microtubule cytoskeleton polarity" evidence=IMP

GO:0034504 "protein localization to nucleus" evidence=IMP

GO:0035105 "sterol regulatory element binding protein import into nucleus" evidence=IMP

GO:0042981 "regulation of apoptotic process" evidence=IDA

GO:0048471 "perinuclear region of cytoplasm" evidence=ISO

GO:0055015 "ventricular cardiac muscle cell development" evidence=IMP

GO:0090343 "positive regulation of cell aging" evidence=ISO

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	147
pfam00038	312	pfam00038, Filament, Intermediate filament protein	2e-11

>gnl|CDD|200948 pfam00038, Filament, Intermediate filament protein

 Score = 59.9 bits (146), Expect = 2e-11
 Identities = 28/90 (31%), Positives = 50/90 (55%)

Query: 58  QEKNELKNLNDRLAQYIELVQKLQNDKASLEYSLYSIEESHTTEFKKVKAASEKEIEDIR 117
            EK +++NLNDRLA YI+ V+ L+     LE  +  + +  + E  ++ +  E+EI ++R
Sbjct: 1   NEKEQMQNLNDRLASYIDKVRFLEQQNKELEAKIEELRQKKSAEPSRLYSLYEQEIRELR 60

Query: 118 KALDRESSSKSALAIEKRRLLDELLDLKNK 147
           K LD  ++ ++ L +E   L     D + K
Sbjct: 61  KQLDELTNERARLQLEIDNLRLAAEDFREK 90

Length = 312

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	147
KOG0977|consensus	546		99.9
PF00038	312	Filament: Intermediate filament protein; InterPro:	99.87
TIGR03752	472	conj_TIGR03752 integrating conjugative element pro	94.39
PF05529	192	Bap31: B-cell receptor-associated protein 31-like	92.56
PF02403	108	Seryl_tRNA_N: Seryl-tRNA synthetase N-terminal dom	92.44
KOG4673|consensus	961		92.39
TIGR02449	65	conserved hypothetical protein TIGR02449. Members	91.71
PRK11546	143	zraP zinc resistance protein; Provisional	91.15
PF04111	314	APG6: Autophagy protein Apg6; InterPro: IPR007243	90.74
PRK10884	206	SH3 domain-containing protein; Provisional	90.53
PRK11020	118	hypothetical protein; Provisional	90.44
PHA02562	562	46 endonuclease subunit; Provisional	90.05
KOG0977|consensus	546		89.97
COG1579	239	Zn-ribbon protein, possibly nucleic acid-binding [	89.66
KOG4196|consensus	135		89.49
PF10186	302	Atg14: UV radiation resistance protein and autopha	89.15
TIGR02231	525	conserved hypothetical protein. This family consis	89.05
PF04156	191	IncA: IncA protein; InterPro: IPR007285 Chlamydia	88.58
PF07106	169	TBPIP: Tat binding protein 1(TBP-1)-interacting pr	88.46
KOG0971|consensus	1243		88.39
KOG0288|consensus	459		88.31
PF09738	302	DUF2051: Double stranded RNA binding protein (DUF2	88.24
PF05010	207	TACC: Transforming acidic coiled-coil-containing p	86.96
COG1579	239	Zn-ribbon protein, possibly nucleic acid-binding [	86.92
PF00261	237	Tropomyosin: Tropomyosin; InterPro: IPR000533 Trop	86.7
KOG2264|consensus	907		86.45
COG5185	622	HEC1 Protein involved in chromosome segregation, i	86.12
PRK11637	428	AmiB activator; Provisional	86.07
PF00038	312	Filament: Intermediate filament protein; InterPro:	85.76
PF10473	140	CENP-F_leu_zip: Leucine-rich repeats of kinetochor	85.42
PF05384	159	DegS: Sensor protein DegS; InterPro: IPR008595 Thi	83.81
PRK10698	222	phage shock protein PspA; Provisional	83.79
PF06156	107	DUF972: Protein of unknown function (DUF972); Inte	83.62
PF14662	193	CCDC155: Coiled-coil region of CCDC155	83.56
PF10226	195	DUF2216: Uncharacterized conserved proteins (DUF22	83.44
PRK13169	110	DNA replication intiation control protein YabA; Re	83.29
PF15372	129	DUF4600: Domain of unknown function (DUF4600)	83.24
PF12718	143	Tropomyosin_1: Tropomyosin like; InterPro: IPR0005	83.23
PF14662	193	CCDC155: Coiled-coil region of CCDC155	83.23
PF04012	221	PspA_IM30: PspA/IM30 family; InterPro: IPR007157 T	82.88
PF14197	69	Cep57_CLD_2: Centrosome localisation domain of PPC	82.77
PHA01750	75	hypothetical protein	82.6
PF04156	191	IncA: IncA protein; InterPro: IPR007285 Chlamydia	82.37
PF02050	123	FliJ: Flagellar FliJ protein; InterPro: IPR012823	82.22
PF04849	306	HAP1_N: HAP1 N-terminal conserved region; InterPro	81.59
PRK13694	83	hypothetical protein; Provisional	81.53
KOG1029|consensus	1118		80.61
KOG1962|consensus	216		80.61
PF05529	192	Bap31: B-cell receptor-associated protein 31-like	80.61
PF07926	132	TPR_MLP1_2: TPR/MLP1/MLP2-like protein; InterPro:	80.19

>KOG0977|consensus

Probab=99.90  E-value=3.4e-23  Score=180.96  Aligned_cols=111  Identities=35%  Similarity=0.444  Sum_probs=103.7

Q ss_pred             CCCCCCCCCCCCCChhhhhhHhHHHHHHHHHhhHHHHHhhhhhhHHHHHHHHHHHHHHHhhcCCcccCchHHHHHHHHHH
Q psy20            37 QPQSQPPRPGSPLSPTIISRRQEKNELKNLNDRLAQYIELVQKLQNDKASLEYSLYSIEESHTTEFKKVKAASEKEIEDI  116 (147)
Q Consensus        37 ~~~s~~~~~~~~~~~~~~~r~~EKe~mq~LNdRLA~YIekVR~LE~~N~~Le~ki~~l~~~~~~~~~~~~~~ye~ei~~l  116 (147)
                      +|.+++..++.|..+++..|.+||++|+.||||||.|||||||||++|+.|+.+|..++...+.+.+.++..|+.+|..+
T Consensus        18 ~~tssg~~~~~~as~ir~sR~rEK~El~~LNDRLA~YIekVR~LEaqN~~L~~di~~lr~~~~~~ts~ik~~ye~El~~a   97 (546)
T KOG0977|consen   18 SSTSSGVSASNAASPIRDSREREKKELQELNDRLAVYIEKVRFLEAQNRKLEHDINLLRGVVGRETSGIKAKYEAELATA   97 (546)
T ss_pred             CccccccccccchhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCcchhHHhhhhHHHH
Confidence            44455555788899999999999999999999999999999999999999999999999999888899999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhhhcC
Q psy20           117 RKALDRESSSKSALAIEKRRLLDELLDLKNK  147 (147)
Q Consensus       117 R~~v~~l~~ek~~l~le~~~l~~~~ed~r~K  147 (147)
                      |..|++...++++++++++.++.++++|+.|
T Consensus        98 r~~l~e~~~~ra~~e~ei~kl~~e~~elr~~  128 (546)
T KOG0977|consen   98 RKLLDETARERAKLEIEITKLREELKELRKK  128 (546)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhHHHHHHHHHH
Confidence            9999999999999999999999999999864

>PF00038 Filament: Intermediate filament protein; InterPro: IPR016044 Intermediate filaments (IF) [, , ] are proteins which are primordial components of the cytoskeleton and the nuclear envelope

Probab=99.87  E-value=5e-22  Score=163.08  Aligned_cols=90  Identities=38%  Similarity=0.581  Sum_probs=78.5

Q ss_pred             hHHHHHHHHHhhHHHHHhhhhhhHHHHHHHHHHHHHHHhhcCCcccCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy20            58 QEKNELKNLNDRLAQYIELVQKLQNDKASLEYSLYSIEESHTTEFKKVKAASEKEIEDIRKALDRESSSKSALAIEKRRL  137 (147)
Q Consensus        58 ~EKe~mq~LNdRLA~YIekVR~LE~~N~~Le~ki~~l~~~~~~~~~~~~~~ye~ei~~lR~~v~~l~~ek~~l~le~~~l  137 (147)
                      +||++|++||||||+||+|||+||++|+.|+.+|..+....++.++.++..|+.+|.++|.+|+.+..++++++++++++
T Consensus         1 ~EK~eL~~LNdRla~YIekVr~LE~~N~~Le~~i~~~~~~~~~~~~~~~~~ye~el~~lr~~id~~~~eka~l~~e~~~l   80 (312)
T PF00038_consen    1 NEKEELQSLNDRLASYIEKVRFLEQENKRLESEIEELREKKGEEVSRIKEMYEEELRELRRQIDDLSKEKARLELEIDNL   80 (312)
T ss_dssp             HCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---------HHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             ChHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHhcccccCcccccchhhHHHHhHHhhhhHHHHhhHHhhhhhhH
Confidence            68999999999999999999999999999999999999987666778999999999999999999999999999999999


Q ss_pred             HHHHHhhhcC
Q psy20           138 LDELLDLKNK  147 (147)
Q Consensus       138 ~~~~ed~r~K  147 (147)
                      +.++++|+.|
T Consensus        81 ~~e~~~~r~k   90 (312)
T PF00038_consen   81 KEELEDLRRK   90 (312)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            9999999853

They generally form filamentous structures 8 to 14 nm wide. IF proteins are members of a very large multigene family of proteins which has been subdivided in five major subgroups: Type I: Acidic cytokeratins. Type II: Basic cytokeratins. Type III: Vimentin, desmin, glial fibrillary acidic protein (GFAP), peripherin, and plasticin. Type IV: Neurofilaments L, H and M, alpha-internexin and nestin. Type V: Nuclear lamins A, B1, B2 and C. All IF proteins are structurally similar in that they consist of: a central rod domain comprising some 300 to 350 residues which is arranged in coiled-coiled alpha-helices, with at least two short characteristic interruptions; a N-terminal non-helical domain (head) of variable length; and a C-terminal domain (tail) which is also non-helical, and which shows extreme length variation between different IF proteins. While IF proteins are evolutionary and structurally related, they have limited sequence homologies except in several regions of the rod domain. This entry represents the central rod domain found in IF proteins.; PDB: 3TNU_B 3KLT_D 1GK4_F 3TRT_A 3G1E_A 3UF1_C 1GK6_B 1GK7_A 3TYY_B 3V4W_A ....

>TIGR03752 conj_TIGR03752 integrating conjugative element protein, PFL_4705 family

Probab=94.39  E-value=0.42  Score=42.26  Aligned_cols=85  Identities=14%  Similarity=0.223  Sum_probs=65.2

Q ss_pred             HHHHHHHHhhHHHHHhhhhhhHHHHHHHHHHHHHHHhhcCCcccCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy20            60 KNELKNLNDRLAQYIELVQKLQNDKASLEYSLYSIEESHTTEFKKVKAASEKEIEDIRKALDRESSSKSALAIEKRRLLD  139 (147)
Q Consensus        60 Ke~mq~LNdRLA~YIekVR~LE~~N~~Le~ki~~l~~~~~~~~~~~~~~ye~ei~~lR~~v~~l~~ek~~l~le~~~l~~  139 (147)
                      .++|..|-.++-..=.++..|+.+|+.|..+.+.|+.+...-..++......+-.++..+.+.+..+...++..++.++.
T Consensus        58 ~DTlrTlva~~k~~r~~~~~l~~~N~~l~~eN~~L~~r~~~id~~i~~av~~~~~~~~~~~~ql~~~~~~~~~~l~~l~~  137 (472)
T TIGR03752        58 ADTLRTLVAEVKELRKRLAKLISENEALKAENERLQKREQSIDQQIQQAVQSETQELTKEIEQLKSERQQLQGLIDQLQR  137 (472)
T ss_pred             cchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            46777777777777777888889999999998888776543345666666667777888888888888888888888887


Q ss_pred             HHHhh
Q psy20           140 ELLDL  144 (147)
Q Consensus       140 ~~ed~  144 (147)
                      .++++
T Consensus       138 ~l~~~  142 (472)
T TIGR03752       138 RLAGV  142 (472)
T ss_pred             HHhhc
Confidence            77654

Members of this protein family are found occasionally on plasmids such as the Pseudomonas putida toluene catabolic TOL plasmid pWWO_p085. Usually, however, they are found on the bacterial main chromosome in regions flanked by markers of conjugative transfer and/or transposition.

>PF05529 Bap31: B-cell receptor-associated protein 31-like ; InterPro: IPR008417 Bap31 is a polytopic integral protein of the endoplasmic reticulum membrane and a substrate of caspase-8

Probab=92.56  E-value=1.2  Score=34.35  Aligned_cols=75  Identities=23%  Similarity=0.275  Sum_probs=42.5

Q ss_pred             HhhHHHHHhhhhhhHHHHHHHHHHHHHHHhhcCCcccCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy20            67 NDRLAQYIELVQKLQNDKASLEYSLYSIEESHTTEFKKVKAASEKEIEDIRKALDRESSSKSALAIEKRRLLDEL  141 (147)
Q Consensus        67 NdRLA~YIekVR~LE~~N~~Le~ki~~l~~~~~~~~~~~~~~ye~ei~~lR~~v~~l~~ek~~l~le~~~l~~~~  141 (147)
                      .+|+..+|.+...+|+....+..+.....................++++++.+|.....|...|..|.+++..+-
T Consensus       117 I~r~~~li~~l~~~~~~~~~~~kq~~~~~~~~~~~~~~~~~~~~~ei~~lk~el~~~~~~~~~LkkQ~~~l~~ey  191 (192)
T PF05529_consen  117 IRRVHSLIKELIKLEEKLEALKKQAESASEAAEKLLKEENKKLSEEIEKLKKELEKKEKEIEALKKQSEGLQKEY  191 (192)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence            455555555555555554444444332221111001122344577888888888888888888888887776653

Bap31 is cleaved within its cytosolic domain, generating pro-apoptotic p20 Bap31 [].; GO: 0006886 intracellular protein transport, 0005783 endoplasmic reticulum, 0016021 integral to membrane

>PF02403 Seryl_tRNA_N: Seryl-tRNA synthetase N-terminal domain; InterPro: IPR015866 The aminoacyl-tRNA synthetases (6

Probab=92.44  E-value=0.85  Score=31.78  Aligned_cols=91  Identities=15%  Similarity=0.269  Sum_probs=57.4

Q ss_pred             hhhHhHHHHHHHHHhh--HHHHHhhhhhhHHHHHHHHHHHHHHHhhcCCcccCchHHHH--HHHHHHHHHHHHHHHHHHH
Q psy20            54 ISRRQEKNELKNLNDR--LAQYIELVQKLQNDKASLEYSLYSIEESHTTEFKKVKAASE--KEIEDIRKALDRESSSKSA  129 (147)
Q Consensus        54 ~~r~~EKe~mq~LNdR--LA~YIekVR~LE~~N~~Le~ki~~l~~~~~~~~~~~~~~ye--~ei~~lR~~v~~l~~ek~~  129 (147)
                      ..+.+--.-.+.|..|  ....++.+..|.++.+.|..+++.++.....-...+.....  .....+..++..+..+-..
T Consensus         6 ~ir~n~e~v~~~l~~R~~~~~~vd~i~~ld~~~r~l~~~~e~lr~~rN~~sk~I~~~~~~~~~~~~l~~e~~~lk~~i~~   85 (108)
T PF02403_consen    6 LIRENPEEVRENLKKRGGDEEDVDEIIELDQERRELQQELEELRAERNELSKEIGKLKKAGEDAEELKAEVKELKEEIKE   85 (108)
T ss_dssp             HHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHTTCCTHHHHHHHHHHHHHHHH
T ss_pred             HHHhCHHHHHHHHHHcCCCHhhHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHhhCcccHHHHHHHHHHHHHHHHH
Confidence            3455555566777777  56789999999999999999999988776421222222222  1344555555556666666


Q ss_pred             HHHHHHHHHHHHHhh
Q psy20           130 LAIEKRRLLDELLDL  144 (147)
Q Consensus       130 l~le~~~l~~~~ed~  144 (147)
                      ++.++..+..+++.+
T Consensus        86 le~~~~~~e~~l~~~  100 (108)
T PF02403_consen   86 LEEQLKELEEELNEL  100 (108)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHH
Confidence            666666666655543

1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. This entry represents the N-terminal domain of Seryl-tRNA synthetase, which consists of two helices in a long alpha-hairpin. Seryl-tRNA synthetase (6.1.1.11 from EC) exists as monomer and belongs to class IIa [].; GO: 0000166 nucleotide binding, 0004828 serine-tRNA ligase activity, 0005524 ATP binding, 0006434 seryl-tRNA aminoacylation, 0005737 cytoplasm; PDB: 3QO8_A 3QO5_A 3QO7_A 3QNE_A 3LSQ_A 3LSS_A 2DQ3_B 1SET_A 1SER_A 1SRY_B ....

>KOG4673|consensus

Probab=92.39  E-value=4.6  Score=37.70  Aligned_cols=87  Identities=21%  Similarity=0.253  Sum_probs=66.1

Q ss_pred             hHhHHHHHHHHHhhHHHHHhhhhhhHHHHHHHHHHH-----HHHHhhcC-CcccCchHHHHHHHHHHHHHHHHHHHHHHH
Q psy20            56 RRQEKNELKNLNDRLAQYIELVQKLQNDKASLEYSL-----YSIEESHT-TEFKKVKAASEKEIEDIRKALDRESSSKSA  129 (147)
Q Consensus        56 r~~EKe~mq~LNdRLA~YIekVR~LE~~N~~Le~ki-----~~l~~~~~-~~~~~~~~~ye~ei~~lR~~v~~l~~ek~~  129 (147)
                      -..=++++..||+.|-.-=...-.+|.+|..|+...     ..++.+.. ...+.+...|-.-|..|-+.|..+.+++..
T Consensus       348 LdK~~~~i~~Ln~~leaReaqll~~e~~ka~lee~~~n~~~e~~~~k~~~s~~ssl~~e~~QRva~lEkKvqa~~kERDa  427 (961)
T KOG4673|consen  348 LDKTKKEIKMLNNALEAREAQLLADEIAKAMLEEEQLNSVTEDLKRKSNESEVSSLREEYHQRVATLEKKVQALTKERDA  427 (961)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHhhcccccchHHHHHHHHHHHHHHHHHHHHhHHH
Confidence            345577899999999866666666777777777632     22333222 236788899999999999999999999999


Q ss_pred             HHHHHHHHHHHHH
Q psy20           130 LAIEKRRLLDELL  142 (147)
Q Consensus       130 l~le~~~l~~~~e  142 (147)
                      +..++.+++.++.
T Consensus       428 lr~e~kslk~ela  440 (961)
T KOG4673|consen  428 LRREQKSLKKELA  440 (961)
T ss_pred             HHHHHHHHHHHHH
Confidence            9999999988764

>TIGR02449 conserved hypothetical protein TIGR02449

Probab=91.71  E-value=2.4  Score=27.68  Aligned_cols=36  Identities=19%  Similarity=0.352  Sum_probs=31.7

Q ss_pred             HHHHHHhhHHHHHhhhhhhHHHHHHHHHHHHHHHhh
Q psy20            62 ELKNLNDRLAQYIELVQKLQNDKASLEYSLYSIEES   97 (147)
Q Consensus        62 ~mq~LNdRLA~YIekVR~LE~~N~~Le~ki~~l~~~   97 (147)
                      +++.|.+++.-.|..+..|..+|..|..+...|...
T Consensus         1 ~L~~Le~kle~Li~~~~~L~~EN~~Lr~q~~~~~~E   36 (65)
T TIGR02449         1 ELQALAAQVEHLLEYLERLKSENRLLRAQEKTWREE   36 (65)
T ss_pred             CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            368899999999999999999999999998777553

Members of this family are small proteins, typically 73 amino acids in length, with single copies in each of several Proteobacteria, including Xylella fastidiosa, Pseudomonas aeruginosa, and Xanthomonas campestris. The function is unknown.

>PRK11546 zraP zinc resistance protein; Provisional

Probab=91.15  E-value=3.3  Score=31.12  Aligned_cols=65  Identities=17%  Similarity=0.337  Sum_probs=47.6

Q ss_pred             HhHHHHHHHHHhhHHHHHhhhhhhHHHHHHHHHHHHHHHhhcCCcccCchHHHHHHHHHHHHHHHHHHH
Q psy20            57 RQEKNELKNLNDRLAQYIELVQKLQNDKASLEYSLYSIEESHTTEFKKVKAASEKEIEDIRKALDRESS  125 (147)
Q Consensus        57 ~~EKe~mq~LNdRLA~YIekVR~LE~~N~~Le~ki~~l~~~~~~~~~~~~~~ye~ei~~lR~~v~~l~~  125 (147)
                      .+.-+.++.+.+.|.   .+.-.|-++-..-..+++.+.....++...+..+ ..||.+||.++++.-.
T Consensus        46 ~EQQa~~q~I~~~f~---~~t~~LRqqL~aKr~ELnALl~~~~pD~~kI~aL-~kEI~~Lr~kL~e~r~  110 (143)
T PRK11546         46 TEQQAAWQKIHNDFY---AQTSALRQQLVSKRYEYNALLTANPPDSSKINAV-AKEMENLRQSLDELRV  110 (143)
T ss_pred             HHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHH-HHHHHHHHHHHHHHHH
Confidence            345567888876665   5777777777777888888877776655566666 6789999998876544

>PF04111 APG6: Autophagy protein Apg6; InterPro: IPR007243 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells

Probab=90.74  E-value=3.3  Score=34.65  Aligned_cols=88  Identities=16%  Similarity=0.264  Sum_probs=62.9

Q ss_pred             hHHHHHHHHHhhHHHHHhhhhhhHHHHHHHHHHHHHHHhhcCCcccCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy20            58 QEKNELKNLNDRLAQYIELVQKLQNDKASLEYSLYSIEESHTTEFKKVKAASEKEIEDIRKALDRESSSKSALAIEKRRL  137 (147)
Q Consensus        58 ~EKe~mq~LNdRLA~YIekVR~LE~~N~~Le~ki~~l~~~~~~~~~~~~~~ye~ei~~lR~~v~~l~~ek~~l~le~~~l  137 (147)
                      .-.++++.|..--...+..+..||.++..|..++..+..... ........|....+.+..++.....+...+..++..+
T Consensus        47 ~~~~el~~le~Ee~~l~~eL~~LE~e~~~l~~el~~le~e~~-~l~~eE~~~~~~~n~~~~~l~~~~~e~~sl~~q~~~~  125 (314)
T PF04111_consen   47 ELEEELEKLEQEEEELLQELEELEKEREELDQELEELEEELE-ELDEEEEEYWREYNELQLELIEFQEERDSLKNQYEYA  125 (314)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334556666666666777888888888888888887766543 2223334566677788888888888888888888888


Q ss_pred             HHHHHhhhc
Q psy20           138 LDELLDLKN  146 (147)
Q Consensus       138 ~~~~ed~r~  146 (147)
                      ...++.++.
T Consensus       126 ~~~L~~L~k  134 (314)
T PF04111_consen  126 SNQLDRLRK  134 (314)
T ss_dssp             HHHHHCHHT
T ss_pred             HHHHHHHHh
Confidence            888887763

In yeast, 15 Apg proteins coordinate the formation of autophagosomes. No molecule involved in autophagy has yet been identified in higher eukaryotes []. The pre-autophagosomal structure contains at least five Apg proteins: Apg1p, Apg2p, Apg5p, Aut7p/Apg8p and Apg16p. It is found in the vacuole []. The C-terminal glycine of Apg12p is conjugated to a lysine residue of Apg5p via an isopeptide bond. During autophagy, cytoplasmic components are enclosed in autophagosomes and delivered to lysosomes/vacuoles. Auotphagy protein 16 (Apg16) has been shown to be bind to Apg5 and is required for the function of the Apg12p-Apg5p conjugate []. Autophagy protein 5 (Apg5) is directly required for the import of aminopeptidase I via the cytoplasm-to-vacuole targeting pathway []. Apg6/Vps30p has two distinct functions in the autophagic process, either associated with the membrane or in a retrieval step of the carboxypeptidase Y sorting pathway [].; GO: 0006914 autophagy; PDB: 3Q8T_A 3VP7_A 4DDP_A.

>PRK10884 SH3 domain-containing protein; Provisional

Probab=90.53  E-value=2.3  Score=33.69  Aligned_cols=21  Identities=29%  Similarity=0.360  Sum_probs=11.1

Q ss_pred             hhhhhhHHHHHHHHHHHHHHH
Q psy20            75 ELVQKLQNDKASLEYSLYSIE   95 (147)
Q Consensus        75 ekVR~LE~~N~~Le~ki~~l~   95 (147)
                      +++-.||++...|..++..+.
T Consensus        93 ~rlp~le~el~~l~~~l~~~~  113 (206)
T PRK10884         93 TRVPDLENQVKTLTDKLNNID  113 (206)
T ss_pred             HHHHHHHHHHHHHHHHHHHHH
Confidence            444455555555555555543

>PRK11020 hypothetical protein; Provisional

Probab=90.44  E-value=0.84  Score=33.00  Aligned_cols=16  Identities=56%  Similarity=0.752  Sum_probs=13.7

Q ss_pred             hHHHHHHHHHhhHHHH
Q psy20            58 QEKNELKNLNDRLAQY   73 (147)
Q Consensus        58 ~EKe~mq~LNdRLA~Y   73 (147)
                      ++|.+||.|||||-.+
T Consensus         2 ~~K~Eiq~L~drLD~~   17 (118)
T PRK11020          2 VEKNEIKRLSDRLDAI   17 (118)
T ss_pred             cHHHHHHHHHHHHHHH
Confidence            6899999999999654

>PHA02562 46 endonuclease subunit; Provisional

Probab=90.05  E-value=1.6  Score=38.45  Aligned_cols=72  Identities=18%  Similarity=0.298  Sum_probs=55.3

Q ss_pred             HhhhhhhHHHHHHHHHHHHHHHhhcCC---cccCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q psy20            74 IELVQKLQNDKASLEYSLYSIEESHTT---EFKKVKAASEKEIEDIRKALDRESSSKSALAIEKRRLLDELLDLK  145 (147)
Q Consensus        74 IekVR~LE~~N~~Le~ki~~l~~~~~~---~~~~~~~~ye~ei~~lR~~v~~l~~ek~~l~le~~~l~~~~ed~r  145 (147)
                      -++++.++++...|..++..+......   ........+...+.+++.+++.+..+...++.++++++.++.+++
T Consensus       173 k~~~~e~~~~i~~l~~~i~~l~~~i~~~~~~i~~~~~~~~~~i~~l~~e~~~l~~~~~~l~~~l~~l~~~i~~l~  247 (562)
T PHA02562        173 KDKIRELNQQIQTLDMKIDHIQQQIKTYNKNIEEQRKKNGENIARKQNKYDELVEEAKTIKAEIEELTDELLNLV  247 (562)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            466778888888888888887665431   122344455667889999999999999999999999999988874

>KOG0977|consensus

Probab=89.97  E-value=1.1  Score=40.47  Aligned_cols=75  Identities=16%  Similarity=0.304  Sum_probs=53.3

Q ss_pred             HHHHHHHHHhhHHHHHhhhhhhHHHHHHHHHHHHHHHhhcCCcccCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy20            59 EKNELKNLNDRLAQYIELVQKLQNDKASLEYSLYSIEESHTTEFKKVKAASEKEIEDIRKALDRESSSKSALAIEKRRL  137 (147)
Q Consensus        59 EKe~mq~LNdRLA~YIekVR~LE~~N~~Le~ki~~l~~~~~~~~~~~~~~ye~ei~~lR~~v~~l~~ek~~l~le~~~l  137 (147)
                      =+|++..+..++-..=-|+..||..|..|+.+|..|.-...    .....|+..|.+.-.+|..+-.+...+.+|+..|
T Consensus       294 ~rEEl~~~R~~i~~Lr~klselE~~n~~L~~~I~dL~~ql~----e~~r~~e~~L~~kd~~i~~mReec~~l~~Elq~L  368 (546)
T KOG0977|consen  294 AREELRRIRSRISGLRAKLSELESRNSALEKRIEDLEYQLD----EDQRSFEQALNDKDAEIAKMREECQQLSVELQKL  368 (546)
T ss_pred             HHHHHHHHHhcccchhhhhccccccChhHHHHHHHHHhhhh----hhhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHh
Confidence            36788888888988889999999999999999999887643    3345566655555555555555555555554443

>COG1579 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]

Probab=89.66  E-value=3.5  Score=33.46  Aligned_cols=85  Identities=26%  Similarity=0.280  Sum_probs=40.3

Q ss_pred             HHHHHHHHhhHHHHHhhhhhhHHHHHHHHHHHHHHHhhcCC------ccc--CchHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy20            60 KNELKNLNDRLAQYIELVQKLQNDKASLEYSLYSIEESHTT------EFK--KVKAASEKEIEDIRKALDRESSSKSALA  131 (147)
Q Consensus        60 Ke~mq~LNdRLA~YIekVR~LE~~N~~Le~ki~~l~~~~~~------~~~--~~~~~ye~ei~~lR~~v~~l~~ek~~l~  131 (147)
                      +.++-.+|+.|..--..+-.|+.+-..++.+|..++.+...      ...  +-...+..++..+...+..+..+-..+.
T Consensus        37 ~~e~e~~~~~~~~~~~e~e~le~qv~~~e~ei~~~r~r~~~~e~kl~~v~~~~e~~aL~~E~~~ak~r~~~le~el~~l~  116 (239)
T COG1579          37 KAELEALNKALEALEIELEDLENQVSQLESEIQEIRERIKRAEEKLSAVKDERELRALNIEIQIAKERINSLEDELAELM  116 (239)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444556666555555555555555555555554444321      111  1122334455555555555555555555


Q ss_pred             HHHHHHHHHHHhh
Q psy20           132 IEKRRLLDELLDL  144 (147)
Q Consensus       132 le~~~l~~~~ed~  144 (147)
                      -++.++..+++++
T Consensus       117 ~~~~~l~~~i~~l  129 (239)
T COG1579         117 EEIEKLEKEIEDL  129 (239)
T ss_pred             HHHHHHHHHHHHH
Confidence            5555555544444

>KOG4196|consensus

Probab=89.49  E-value=4.8  Score=29.80  Aligned_cols=79  Identities=20%  Similarity=0.210  Sum_probs=52.6

Q ss_pred             HHHHhhHHHH-HhhhhhhHHHHHHHHHHHHHHHhhcCCcccCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy20            64 KNLNDRLAQY-IELVQKLQNDKASLEYSLYSIEESHTTEFKKVKAASEKEIEDIRKALDRESSSKSALAIEKRRLLDELL  142 (147)
Q Consensus        64 q~LNdRLA~Y-IekVR~LE~~N~~Le~ki~~l~~~~~~~~~~~~~~ye~ei~~lR~~v~~l~~ek~~l~le~~~l~~~~e  142 (147)
                      ..||.+|-.+ -|.|-.|-|.-+.|...--...-...  ...-+...|++-..|.++|+.+..|++++..|+|.++...+
T Consensus        35 ReLNr~LrG~~reEVvrlKQrRRTLKNRGYA~sCR~K--Rv~Qk~eLE~~k~~L~qqv~~L~~e~s~~~~E~da~k~k~e  112 (135)
T KOG4196|consen   35 RELNRHLRGLSREEVVRLKQRRRTLKNRGYAQSCRVK--RVQQKHELEKEKAELQQQVEKLKEENSRLRRELDAYKSKYE  112 (135)
T ss_pred             HHHHHHhcCCCHHHHHHHHHHHHHHhhhhHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4688888776 46677776666655443211111000  11123445777789999999999999999999999988776


Q ss_pred             hh
Q psy20           143 DL  144 (147)
Q Consensus       143 d~  144 (147)
                      .+
T Consensus       113 ~l  114 (135)
T KOG4196|consen  113 AL  114 (135)
T ss_pred             HH
Confidence            54

>PF10186 Atg14: UV radiation resistance protein and autophagy-related subunit 14; InterPro: IPR018791 Class III phosphatidylinositol 3-kinase (PI3-kinase) regulates multiple membrane trafficking

Probab=89.15  E-value=6.5  Score=31.43  Aligned_cols=32  Identities=25%  Similarity=0.353  Sum_probs=22.3

Q ss_pred             HHHhhHHHHHhhhhhhHHHHHHHHHHHHHHHh
Q psy20            65 NLNDRLAQYIELVQKLQNDKASLEYSLYSIEE   96 (147)
Q Consensus        65 ~LNdRLA~YIekVR~LE~~N~~Le~ki~~l~~   96 (147)
                      ++|++|...-.....+-.+|..|..+|..+.+
T Consensus        17 C~~~~L~~~~~~l~~~~~~~~~l~~~i~~~l~   48 (302)
T PF10186_consen   17 CVNNRLLELRSELQQLKEENEELRRRIEEILE   48 (302)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            56667777777777777777777777776554

In yeast, two distinct PI3-kinase complexes are known: complex I (Vps34, Vps15, Vps30/Atg6, and Atg14) is involved in autophagy, and complex II (Vps34, Vps15, Vps30/Atg6, and Vps38) functions in the vacuolar protein sorting pathway. In mammals, the counterparts of Vps34, Vps15, and Vps30/Atg6 are Vps34, p150, and Beclin 1, respectively. Mammalian UV irradiation resistance-associated gene (UVRAG) has been identified as identical to yeast Vps38 []. The Atg14 (autophagy-related protein 14) proteins are hydrophilic proteins and have a coiled-coil motif at the N terminus region. Yeast cells with mutant Atg14 are defective not only in autophagy but also in sorting of carboxypeptidase Y (CPY), a vacuolar-soluble hydrolase, to the vacuole []. This entry represents Atg14 and UVRAG, which bind Beclin 1 to forms two distinct PI3-kinase complexes. This entry also includes Bakor (beclin-1-associated autophagy-related key regulator), also known as autophagy-related protein 14-like protein, which share sequence similarity to the yeast Atg14 protein []. Barkor positively regulates autophagy through its interaction with Beclin-1, with decreased levels of autophagosome formation observed when Barkor expression is eliminated []. Autophagy mediates the cellular response to nutrient deprivation, protein aggregation, and pathogen invasion in humans, and malfunction of autophagy has been implicated in multiple human diseases including cancer. ; GO: 0010508 positive regulation of autophagy

>TIGR02231 conserved hypothetical protein

Probab=89.05  E-value=4.9  Score=35.58  Aligned_cols=84  Identities=15%  Similarity=0.160  Sum_probs=52.2

Q ss_pred             HHHHHHhhHHHHHhhhhhhHHHHHHHHHHHHHHHhhcC-------------C-c---ccCchHHHHHHHHHHHHHHHHHH
Q psy20            62 ELKNLNDRLAQYIELVQKLQNDKASLEYSLYSIEESHT-------------T-E---FKKVKAASEKEIEDIRKALDRES  124 (147)
Q Consensus        62 ~mq~LNdRLA~YIekVR~LE~~N~~Le~ki~~l~~~~~-------------~-~---~~~~~~~ye~ei~~lR~~v~~l~  124 (147)
                      .++.|.+++...-+.+..++.+...++.++..|..-..             . .   ...+...|..++..++..+.++.
T Consensus        72 ~~~~l~~~l~~l~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  151 (525)
T TIGR02231        72 RLAELRKQIRELEAELRDLEDRGDALKALAKFLEDIREGLTEPIKDSAKRNEPDLKEWFQAFDFNGSEIERLLTEDREAE  151 (525)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccccccccccCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44455555555444545555555555555544433220             0 0   12334567778888999998999


Q ss_pred             HHHHHHHHHHHHHHHHHHhhh
Q psy20           125 SSKSALAIEKRRLLDELLDLK  145 (147)
Q Consensus       125 ~ek~~l~le~~~l~~~~ed~r  145 (147)
                      .+...+..++..++.++..+.
T Consensus       152 ~~~~~~~~~l~~l~~~l~~l~  172 (525)
T TIGR02231       152 RRIRELEKQLSELQNELNALL  172 (525)
T ss_pred             HHHHHHHHHHHHHHHHHHhhc
Confidence            988899999998888887663

This family consists of proteins over 500 amino acids long in Caenorhabditis elegans and several bacteria (Pseudomonas aeruginosa, Nostoc sp. PCC 7120, Leptospira interrogans, etc.). The function is unknown.

>PF04156 IncA: IncA protein; InterPro: IPR007285 Chlamydia trachomatis is an obligate intracellular bacterium that develops within a parasitophorous vacuole termed an inclusion

Probab=88.58  E-value=9  Score=29.06  Aligned_cols=36  Identities=33%  Similarity=0.425  Sum_probs=21.0

Q ss_pred             HHHHHHHhhHHHHHhhhhhhHHHHHHHHHHHHHHHh
Q psy20            61 NELKNLNDRLAQYIELVQKLQNDKASLEYSLYSIEE   96 (147)
Q Consensus        61 e~mq~LNdRLA~YIekVR~LE~~N~~Le~ki~~l~~   96 (147)
                      .+++.++.++..+-++.-.++..+..+..++..++.
T Consensus        81 ~e~~~~~~~l~~l~~el~~l~~~~~~~~~~l~~~~~  116 (191)
T PF04156_consen   81 GELSELQQQLQQLQEELDQLQERIQELESELEKLKE  116 (191)
T ss_pred             hhHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            355666666666655655666666666665555443

The inclusion is nonfusogenic with lysosomes but intercepts lipids from a host cell exocytic pathway. Initiation of chlamydial development is concurrent with modification of the inclusion membrane by a set of C. trachomatis-encoded proteins collectively designated Incs. One of these Incs, IncA (Inclusion membrane protein A), is functionally associated with the homotypic fusion of inclusions [].

>PF07106 TBPIP: Tat binding protein 1(TBP-1)-interacting protein (TBPIP); InterPro: IPR010776 This family consists of several eukaryotic TBP-1 interacting protein (TBPIP) sequences

Probab=88.46  E-value=6.1  Score=29.73  Aligned_cols=39  Identities=26%  Similarity=0.352  Sum_probs=32.4

Q ss_pred             HHHHHHHHhhHHHHHhhhhhhHHHHHHHHHHHHHHHhhc
Q psy20            60 KNELKNLNDRLAQYIELVQKLQNDKASLEYSLYSIEESH   98 (147)
Q Consensus        60 Ke~mq~LNdRLA~YIekVR~LE~~N~~Le~ki~~l~~~~   98 (147)
                      .++|..|+..+...-+.+..|+.+++.|+.++..+....
T Consensus        71 ~eel~~ld~ei~~L~~el~~l~~~~k~l~~eL~~L~~~~  109 (169)
T PF07106_consen   71 PEELAELDAEIKELREELAELKKEVKSLEAELASLSSEP  109 (169)
T ss_pred             chhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC
Confidence            456778887888888899999999999999998887654

TBP-1 has been demonstrated to interact with the human immunodeficiency virus type 1 (HIV-1) viral protein Tat, then modulate the essential replication process of HIV. In addition, TBP-1 has been shown to be a component of the 26S proteasome, a basic multiprotein complex that degrades ubiquitinated proteins in an ATP-dependent fashion. Human TBPIP interacts with human TBP-1 then modulates the inhibitory action of human TBP-1 on HIV-Tat-mediated transactivation [].

>KOG0971|consensus

Probab=88.39  E-value=2.5  Score=40.41  Aligned_cols=36  Identities=28%  Similarity=0.334  Sum_probs=23.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q psy20           110 EKEIEDIRKALDRESSSKSALAIEKRRLLDELLDLK  145 (147)
Q Consensus       110 e~ei~~lR~~v~~l~~ek~~l~le~~~l~~~~ed~r  145 (147)
                      -++++..+..+.++.+.+.+|..+++++...+.||+
T Consensus       402 ~kelE~k~sE~~eL~r~kE~Lsr~~d~aEs~iadlk  437 (1243)
T KOG0971|consen  402 QKELEKKNSELEELRRQKERLSRELDQAESTIADLK  437 (1243)
T ss_pred             HHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            445555666666666667777777777777777665

>KOG0288|consensus

Probab=88.31  E-value=10  Score=33.27  Aligned_cols=68  Identities=16%  Similarity=0.178  Sum_probs=49.3

Q ss_pred             HhHHHHHHHHHhhHHHHHhhhhhhHHHHHHHHHHHHHHHhhcCCcccCchHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy20            57 RQEKNELKNLNDRLAQYIELVQKLQNDKASLEYSLYSIEESHTTEFKKVKAASEKEIEDIRKALDRESSSKSALAI  132 (147)
Q Consensus        57 ~~EKe~mq~LNdRLA~YIekVR~LE~~N~~Le~ki~~l~~~~~~~~~~~~~~ye~ei~~lR~~v~~l~~ek~~l~l  132 (147)
                      ..-++-+..||.++|.+-.++-.|-.|+..|.++...+..+-        ..-|.+|++|+.....+..+..+...
T Consensus         9 s~~dqr~~~~~~~laq~~k~~s~~~aq~~~~~a~~~ai~a~~--------~~~E~~l~~Lq~e~~~l~e~~v~~~a   76 (459)
T KOG0288|consen    9 SENDQRLIDLNTELAQCEKAQSRLSAQLVILRAESRAIKAKL--------QEKELELNRLQEENTQLNEERVREEA   76 (459)
T ss_pred             hhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--------HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344667889999999999999999999999998887765543        23366677777666666655544433

>PF09738 DUF2051: Double stranded RNA binding protein (DUF2051); InterPro: IPR019139 This entry represents transcriptional repressors which preferentially bind to the GC-rich consensus sequence (5'-AGCCCCCGGCG-3') and may regulate expression of TNF, EGFR and PDGFA

Probab=88.24  E-value=14  Score=30.93  Aligned_cols=36  Identities=14%  Similarity=0.239  Sum_probs=18.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q psy20           110 EKEIEDIRKALDRESSSKSALAIEKRRLLDELLDLK  145 (147)
Q Consensus       110 e~ei~~lR~~v~~l~~ek~~l~le~~~l~~~~ed~r  145 (147)
                      +.++..+++.+.+...+-.++.-.++.++.++++++
T Consensus       125 eE~~~~~~re~~eK~~elEr~K~~~d~L~~e~~~Lr  160 (302)
T PF09738_consen  125 EETLAQLQREYREKIRELERQKRAHDSLREELDELR  160 (302)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334445555555555555555555555555555544

They may control smooth muscle cell proliferation following artery injury through PDGFA repression and may also bind double-stranded RNA. They interact with the leucine-rich repeat domain of human flightless-I (FliI) protein.

>PF05010 TACC: Transforming acidic coiled-coil-containing protein (TACC); InterPro: IPR007707 This family contains the proteins TACC 1, 2 and 3, found concentrated in the centrosomes of eukaryotes which may play a conserved role in organising centrosomal microtubules

Probab=86.96  E-value=8.8  Score=30.46  Aligned_cols=80  Identities=16%  Similarity=0.202  Sum_probs=53.5

Q ss_pred             HHHHhhHHHHHhhhhhhHHHHHHHHHHHHHHHhhcCCcccCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy20            64 KNLNDRLAQYIELVQKLQNDKASLEYSLYSIEESHTTEFKKVKAASEKEIEDIRKALDRESSSKSALAIEKRRLLDELLD  143 (147)
Q Consensus        64 q~LNdRLA~YIekVR~LE~~N~~Le~ki~~l~~~~~~~~~~~~~~ye~ei~~lR~~v~~l~~ek~~l~le~~~l~~~~ed  143 (147)
                      ..|..+...|+++|..+++....|-.....-...-..+...++.-+.+++..|++.|........-|+.++..-..+.++
T Consensus       114 E~Lkk~~~ey~~~l~~~eqry~aLK~hAeekL~~ANeei~~v~~~~~~e~~aLqa~lkk~e~~~~SLe~~LeQK~kEn~E  193 (207)
T PF05010_consen  114 ETLKKCIEEYEERLKKEEQRYQALKAHAEEKLEKANEEIAQVRSKHQAELLALQASLKKEEMKVQSLEESLEQKTKENEE  193 (207)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34678899999999999988887765544433332223556677777888888888877766666666555544444443

The human TACC proteins have been linked to cancer and TACC2 has been identified as a possible tumour suppressor (AZU-1) [].

>COG1579 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]

Probab=86.92  E-value=13  Score=30.27  Aligned_cols=31  Identities=16%  Similarity=0.261  Sum_probs=16.2

Q ss_pred             HHHHHHHhhHHHHHhhhhhhHHHHHHHHHHH
Q psy20            61 NELKNLNDRLAQYIELVQKLQNDKASLEYSL   91 (147)
Q Consensus        61 e~mq~LNdRLA~YIekVR~LE~~N~~Le~ki   91 (147)
                      ..+..++-.+..|=..|..+|.+-..+..++
T Consensus        45 ~~~~~~~~e~e~le~qv~~~e~ei~~~r~r~   75 (239)
T COG1579          45 KALEALEIELEDLENQVSQLESEIQEIRERI   75 (239)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3445555555555555555555555444443

>PF00261 Tropomyosin: Tropomyosin; InterPro: IPR000533 Tropomyosins [], are a family of closely related proteins present in muscle and non-muscle cells

Probab=86.70  E-value=11  Score=30.03  Aligned_cols=78  Identities=24%  Similarity=0.287  Sum_probs=37.4

Q ss_pred             HhhHHHHHhhhhhhHHHHHHHHHHHHHHHhhcCCcccCchHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHH
Q psy20            67 NDRLAQYIELVQKLQNDKASLEYSLYSIEESHTTEFKKVKAASEKEIEDIRKALDRES-------SSKSALAIEKRRLLD  139 (147)
Q Consensus        67 NdRLA~YIekVR~LE~~N~~Le~ki~~l~~~~~~~~~~~~~~ye~ei~~lR~~v~~l~-------~ek~~l~le~~~l~~  139 (147)
                      ..|+...=.+|..||.+...+...+..+..... ....--..|+..|..|..++..+.       .....|+.+++.+..
T Consensus       133 EeR~e~~E~ki~eLE~el~~~~~~lk~lE~~~~-~~~~re~~~e~~i~~L~~~lkeaE~Rae~aE~~v~~Le~~id~le~  211 (237)
T PF00261_consen  133 EERAEAAESKIKELEEELKSVGNNLKSLEASEE-KASEREDEYEEKIRDLEEKLKEAENRAEFAERRVKKLEKEIDRLED  211 (237)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHhhhchhHHHHHHHHHHHHHHHHHhhhhhh-hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333333444444444444444444333333222 112223567777777777776544       334455555555555


Q ss_pred             HHHhhh
Q psy20           140 ELLDLK  145 (147)
Q Consensus       140 ~~ed~r  145 (147)
                      ++...+
T Consensus       212 eL~~~k  217 (237)
T PF00261_consen  212 ELEKEK  217 (237)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            555443

In striated muscle, tropomyosin mediate the interactions between the troponin complex and actin so as to regulate muscle contraction []. The role of tropomyosin in smooth muscle and non-muscle tissues is not clear. Tropomyosin is an alpha-helical protein that forms a coiled-coil structure of 2 parallel helices containing 2 sets of 7 alternating actin binding sites []. There are multiple cell-specific isoforms, created by differential splicing of the messenger RNA from one gene, but the proportions of the isoforms vary between different cell types. Muscle isoforms of tropomyosin are characterised by having 284 amino acid residues and a highly conserved N-terminal region, whereas non-muscle forms are generally smaller and are heterogeneous in their N-terminal region. This entry represents tropomyosin (Tmp) 1, 2 and 3. Within the yeast Tmp1 and Tmp2, biochemical and sequence analyses indicate that Tpm2 spans four actin monomers along a filament, whereas Tpm1 spans five. Despite its shorter length, Tpm2 can compete with Tpm1 for binding to F-actin. Over-expression of Tpm2 in vivo alters the axial budding of haploids to a bipolar pattern, and this can be partially suppressed by co-over-expression of Tpm1. This suggests distinct functions for the two tropomyosins, and indicates that the ratio between them is important for correct morphogenesis [].; PDB: 2EFR_A 2Z5H_C 2Z5I_D 2D3E_B 2EFS_D 3U59_B 1C1G_C 1IHQ_A 3AZD_B 1MV4_B ....

>KOG2264|consensus

Probab=86.45  E-value=2.8  Score=38.38  Aligned_cols=86  Identities=20%  Similarity=0.249  Sum_probs=53.5

Q ss_pred             HHHHHHHHhhHHHH--HhhhhhhHHHHHHHHHHHHHH---HhhcCCcccCchHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy20            60 KNELKNLNDRLAQY--IELVQKLQNDKASLEYSLYSI---EESHTTEFKKVKAASEKEIEDIRKALDRESSSKSALAIEK  134 (147)
Q Consensus        60 Ke~mq~LNdRLA~Y--IekVR~LE~~N~~Le~ki~~l---~~~~~~~~~~~~~~ye~ei~~lR~~v~~l~~ek~~l~le~  134 (147)
                      |..+..+.++.++|  ..-+|.++.+.+.+++--.+|   ..+.. +-...-..|...|+++++.|.....|-.+|+.++
T Consensus        59 ~~~~~~~~p~~~s~~~~s~~r~~~e~~RI~~sVs~EL~ele~krq-el~seI~~~n~kiEelk~~i~~~q~eL~~Lk~~i  137 (907)
T KOG2264|consen   59 KQNIENLDPYDASCSGYSIGRILREQKRILASVSLELTELEVKRQ-ELNSEIEEINTKIEELKRLIPQKQLELSALKGEI  137 (907)
T ss_pred             hhcccccCcccccccchhHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHhHHHHHHHHHHHHHHHHHHhHHHHHHHHhHH
Confidence            34455566666644  455677777777666533333   22222 1112223456677788888888888888888888


Q ss_pred             HHHHHHHHhhhc
Q psy20           135 RRLLDELLDLKN  146 (147)
Q Consensus       135 ~~l~~~~ed~r~  146 (147)
                      ...+...++++.
T Consensus       138 eqaq~~~~El~~  149 (907)
T KOG2264|consen  138 EQAQRQLEELRE  149 (907)
T ss_pred             HHHHHHHHHHHh
Confidence            888888887753

>COG5185 HEC1 Protein involved in chromosome segregation, interacts with SMC proteins [Cell division and chromosome partitioning]

Probab=86.12  E-value=12  Score=33.62  Aligned_cols=41  Identities=20%  Similarity=0.233  Sum_probs=33.2

Q ss_pred             hHhHHHHHHHHHhhHHHHHhhhhhhHHHHHHHHHHHHHHHh
Q psy20            56 RRQEKNELKNLNDRLAQYIELVQKLQNDKASLEYSLYSIEE   96 (147)
Q Consensus        56 r~~EKe~mq~LNdRLA~YIekVR~LE~~N~~Le~ki~~l~~   96 (147)
                      .-++-+.+++-|++|..-|..++.+-+..+.|+.+|..++.
T Consensus       269 i~~~i~~lk~~n~~l~e~i~ea~k~s~~i~~l~ek~r~l~~  309 (622)
T COG5185         269 INTDIANLKTQNDNLYEKIQEAMKISQKIKTLREKWRALKS  309 (622)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            34666778888999999999999998888888888877643

>PRK11637 AmiB activator; Provisional

Probab=86.07  E-value=8.3  Score=33.26  Aligned_cols=33  Identities=15%  Similarity=0.208  Sum_probs=15.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy20           110 EKEIEDIRKALDRESSSKSALAIEKRRLLDELL  142 (147)
Q Consensus       110 e~ei~~lR~~v~~l~~ek~~l~le~~~l~~~~e  142 (147)
                      +.+|..+..+|..+..+...++.+++..+..+.
T Consensus        95 ~~~i~~~~~ei~~l~~eI~~~q~~l~~~~~~l~  127 (428)
T PRK11637         95 QNTLNQLNKQIDELNASIAKLEQQQAAQERLLA  127 (428)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344444555555555444444444444444443

>PF00038 Filament: Intermediate filament protein; InterPro: IPR016044 Intermediate filaments (IF) [, , ] are proteins which are primordial components of the cytoskeleton and the nuclear envelope

Probab=85.76  E-value=9.7  Score=31.05  Aligned_cols=67  Identities=27%  Similarity=0.310  Sum_probs=46.2

Q ss_pred             hhhHHHHHHHHHHHHHHHhhcCCcccCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q psy20            78 QKLQNDKASLEYSLYSIEESHTTEFKKVKAASEKEIEDIRKALDRESSSKSALAIEKRRLLDELLDLK  145 (147)
Q Consensus        78 R~LE~~N~~Le~ki~~l~~~~~~~~~~~~~~ye~ei~~lR~~v~~l~~ek~~l~le~~~l~~~~ed~r  145 (147)
                      ..|+.+...|..++..++.+.. .........+.+|..+|..++..+..+..++.++..++.+++-++
T Consensus        71 a~l~~e~~~l~~e~~~~r~k~e-~e~~~~~~le~el~~lrk~ld~~~~~r~~le~~i~~L~eEl~fl~  137 (312)
T PF00038_consen   71 ARLELEIDNLKEELEDLRRKYE-EELAERKDLEEELESLRKDLDEETLARVDLENQIQSLKEELEFLK  137 (312)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHhhhhhhHHHHHHHHHHHHH-HHHHHHHHHHHHHhhhhhhhhhhhhhHhHHHHHHHHHHHHHHHHH
Confidence            3344444555555555555432 123344556788999999999999999999999999998876543

They generally form filamentous structures 8 to 14 nm wide. IF proteins are members of a very large multigene family of proteins which has been subdivided in five major subgroups: Type I: Acidic cytokeratins. Type II: Basic cytokeratins. Type III: Vimentin, desmin, glial fibrillary acidic protein (GFAP), peripherin, and plasticin. Type IV: Neurofilaments L, H and M, alpha-internexin and nestin. Type V: Nuclear lamins A, B1, B2 and C. All IF proteins are structurally similar in that they consist of: a central rod domain comprising some 300 to 350 residues which is arranged in coiled-coiled alpha-helices, with at least two short characteristic interruptions; a N-terminal non-helical domain (head) of variable length; and a C-terminal domain (tail) which is also non-helical, and which shows extreme length variation between different IF proteins. While IF proteins are evolutionary and structurally related, they have limited sequence homologies except in several regions of the rod domain. This entry represents the central rod domain found in IF proteins.; PDB: 3TNU_B 3KLT_D 1GK4_F 3TRT_A 3G1E_A 3UF1_C 1GK6_B 1GK7_A 3TYY_B 3V4W_A ....

>PF10473 CENP-F_leu_zip: Leucine-rich repeats of kinetochore protein Cenp-F/LEK1; InterPro: IPR019513 Cenp-F, a centromeric kinetochore, microtubule-binding protein consisting of two 1,600-amino acid-long coils, is essential for the full functioning of the mitotic checkpoint pathway [, ]

Probab=85.42  E-value=6  Score=29.56  Aligned_cols=65  Identities=20%  Similarity=0.189  Sum_probs=37.7

Q ss_pred             HHHhhhhhhHHHHHHHHHHHHHHHhhcCCcccCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q psy20            72 QYIELVQKLQNDKASLEYSLYSIEESHTTEFKKVKAASEKEIEDIRKALDRESSSKSALAIEKRRLLDELLDL  144 (147)
Q Consensus        72 ~YIekVR~LE~~N~~Le~ki~~l~~~~~~~~~~~~~~ye~ei~~lR~~v~~l~~ek~~l~le~~~l~~~~ed~  144 (147)
                      ++=++|-.||.+-...+.....        .........++|..|..+|..++.+..+|..+++++..+-+++
T Consensus        21 sle~~v~~LEreLe~~q~~~e~--------~~~daEn~k~eie~L~~el~~lt~el~~L~~EL~~l~sEk~~L   85 (140)
T PF10473_consen   21 SLEDHVESLERELEMSQENKEC--------LILDAENSKAEIETLEEELEELTSELNQLELELDTLRSEKENL   85 (140)
T ss_pred             hHHHHHHHHHHHHHHHHHhHHH--------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3335666666554444333222        1222344456777777777777777777777777776665544

There are several leucine-rich repeats along the sequence of LEK1 that are considered to be zippers, though they do not appear to be binding DNA directly in this instance []. ; GO: 0008134 transcription factor binding, 0042803 protein homodimerization activity, 0045502 dynein binding

>PF05384 DegS: Sensor protein DegS; InterPro: IPR008595 This is a group of Bacillus DegS proteins

Probab=83.81  E-value=17  Score=27.68  Aligned_cols=82  Identities=18%  Similarity=0.291  Sum_probs=53.5

Q ss_pred             HHHHHHHHhhHHHHHhhhhhhHHHHHHHHHHHHHHHhhcCCc-ccCchHHHHH------HHHHHHHHHHHHHHHHHHHHH
Q psy20            60 KNELKNLNDRLAQYIELVQKLQNDKASLEYSLYSIEESHTTE-FKKVKAASEK------EIEDIRKALDRESSSKSALAI  132 (147)
Q Consensus        60 Ke~mq~LNdRLA~YIekVR~LE~~N~~Le~ki~~l~~~~~~~-~~~~~~~ye~------ei~~lR~~v~~l~~ek~~l~l  132 (147)
                      +.+|..+...++.+|+.|=.||..-+....++.+........ ...++..|+.      .+.-+|.+...+-..+..|+.
T Consensus        33 ~~EL~evk~~v~~~I~evD~Le~~er~aR~rL~eVS~~f~~ysE~dik~AYe~A~~lQ~~L~~~re~E~qLr~rRD~LEr  112 (159)
T PF05384_consen   33 RKELEEVKEEVSEVIEEVDKLEKRERQARQRLAEVSRNFDRYSEEDIKEAYEEAHELQVRLAMLREREKQLRERRDELER  112 (159)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            567888999999999999999999888887776665544322 2355666665      233444444455555555555


Q ss_pred             HHHHHHHHH
Q psy20           133 EKRRLLDEL  141 (147)
Q Consensus       133 e~~~l~~~~  141 (147)
                      .+.++..-+
T Consensus       113 rl~~l~~ti  121 (159)
T PF05384_consen  113 RLRNLEETI  121 (159)
T ss_pred             HHHHHHHHH
Confidence            555554443

The DegS-DegU two-component regulatory system of Bacillus subtilis controls various processes that characterise the transition from the exponential to the stationary growth phase, including the induction of extracellular degradative enzymes, expression of late competence genes and down-regulation of the sigma D regulon []. The entry also contains one sequence Q8R9D3 from SWISSPROT from Thermoanaerobacter tengcongensis which is described as a sensory transduction histidine kinase.; GO: 0016301 kinase activity, 0007165 signal transduction

>PRK10698 phage shock protein PspA; Provisional

Probab=83.79  E-value=20  Score=28.47  Aligned_cols=90  Identities=12%  Similarity=0.125  Sum_probs=66.5

Q ss_pred             hHHHHHHHHHhhHHHHHhhhhhhHHHHHHHHHHHHHHHhhcCC----cccCc-------hHHHHHHHHHHHHHHHHHHHH
Q psy20            58 QEKNELKNLNDRLAQYIELVQKLQNDKASLEYSLYSIEESHTT----EFKKV-------KAASEKEIEDIRKALDRESSS  126 (147)
Q Consensus        58 ~EKe~mq~LNdRLA~YIekVR~LE~~N~~Le~ki~~l~~~~~~----~~~~~-------~~~ye~ei~~lR~~v~~l~~e  126 (147)
                      +=.+++..+-.-+|..|-..+.+|.+-..++..+..|..+-.-    ....+       +..|...+..|+.+++.....
T Consensus        35 em~~~l~~~r~alA~~~A~~k~~er~~~~~~~~~~~~e~kA~~Al~~G~EdLAr~AL~~K~~~~~~~~~l~~~~~~~~~~  114 (222)
T PRK10698         35 EMEDTLVEVRSTSARALAEKKQLTRRIEQAEAQQVEWQEKAELALRKEKEDLARAALIEKQKLTDLIATLEHEVTLVDET  114 (222)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3345566677778888888889999888888888887665310    11122       233778888899888888888


Q ss_pred             HHHHHHHHHHHHHHHHhhhcC
Q psy20           127 KSALAIEKRRLLDELLDLKNK  147 (147)
Q Consensus       127 k~~l~le~~~l~~~~ed~r~K  147 (147)
                      -..|..++..++..+.+++.|
T Consensus       115 ~~~L~~~l~~L~~ki~eak~k  135 (222)
T PRK10698        115 LARMKKEIGELENKLSETRAR  135 (222)
T ss_pred             HHHHHHHHHHHHHHHHHHHHH
Confidence            888888888888888887753

>PF06156 DUF972: Protein of unknown function (DUF972); InterPro: IPR010377 FUNCTION: Involved in initiation control of chromosome replication

Probab=83.62  E-value=4  Score=29.08  Aligned_cols=35  Identities=29%  Similarity=0.452  Sum_probs=30.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q psy20           110 EKEIEDIRKALDRESSSKSALAIEKRRLLDELLDL  144 (147)
Q Consensus       110 e~ei~~lR~~v~~l~~ek~~l~le~~~l~~~~ed~  144 (147)
                      ..+|..|+.+|..+..+|+.|.+|.++++.-+.++
T Consensus        21 ~~~~~~LK~~~~~l~EEN~~L~~EN~~Lr~~l~~~   55 (107)
T PF06156_consen   21 LEELEELKKQLQELLEENARLRIENEHLRERLEEL   55 (107)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            35677888899999999999999999999988775

SUBUNIT: Interacts with both DnaA and DnaN, acting as a bridge between these two proteins. SIMILARITY: Belongs to the YabA family.

>PF14662 CCDC155: Coiled-coil region of CCDC155

Probab=83.56  E-value=11  Score=29.58  Aligned_cols=13  Identities=15%  Similarity=0.233  Sum_probs=5.0

Q ss_pred             HHHHHHHHHHHHH
Q psy20            81 QNDKASLEYSLYS   93 (147)
Q Consensus        81 E~~N~~Le~ki~~   93 (147)
                      |..|..|..+|..
T Consensus        35 ee~na~L~~e~~~   47 (193)
T PF14662_consen   35 EEGNAQLAEEITD   47 (193)
T ss_pred             HHHHHHHHHHHHH
Confidence            3333333333333

>PF10226 DUF2216: Uncharacterized conserved proteins (DUF2216); InterPro: IPR019359 Proteins in this entry are found in Metazoa and contain a coiled-coil domain

Probab=83.44  E-value=20  Score=28.22  Aligned_cols=37  Identities=19%  Similarity=0.258  Sum_probs=33.1

Q ss_pred             HHHHHHhhHHHHHhhhhhhHHHHHHHHHHHHHHHhhc
Q psy20            62 ELKNLNDRLAQYIELVQKLQNDKASLEYSLYSIEESH   98 (147)
Q Consensus        62 ~mq~LNdRLA~YIekVR~LE~~N~~Le~ki~~l~~~~   98 (147)
                      -|+..|.+|-.-+..+|.|-+.|++|..+-++|++-.
T Consensus        42 lm~evNrrlQ~hl~EIR~LKe~NqkLqedNqELRdLC   78 (195)
T PF10226_consen   42 LMKEVNRRLQQHLNEIRGLKEVNQKLQEDNQELRDLC   78 (195)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5788999999999999999999999999888887765

Some annotation suggests it might be PKR, the Hepatitis delta antigen-interacting protein A, but this could not be confirmed.

>PRK13169 DNA replication intiation control protein YabA; Reviewed

Probab=83.29  E-value=4.2  Score=29.19  Aligned_cols=35  Identities=29%  Similarity=0.423  Sum_probs=30.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q psy20           110 EKEIEDIRKALDRESSSKSALAIEKRRLLDELLDL  144 (147)
Q Consensus       110 e~ei~~lR~~v~~l~~ek~~l~le~~~l~~~~ed~  144 (147)
                      ..++.+|+.+|..+..+|+.|.+|-++++..++++
T Consensus        21 ~~el~~LK~~~~el~EEN~~L~iEN~~Lr~~l~~~   55 (110)
T PRK13169         21 LKELGALKKQLAELLEENTALRLENDKLRERLEEL   55 (110)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            35677888888899999999999999999988876

>PF15372 DUF4600: Domain of unknown function (DUF4600)

Probab=83.24  E-value=15  Score=27.17  Aligned_cols=74  Identities=16%  Similarity=0.229  Sum_probs=48.0

Q ss_pred             hHHHHHhhhhhhHHHHHHHHHHHHHHHhhcCCcccCchHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy20            69 RLAQYIELVQKLQNDKASLEYSLYSIEESHTTEFKKVKAASEK-EIEDIRKALDRESSSKSALAIEKRRLLDELLD  143 (147)
Q Consensus        69 RLA~YIekVR~LE~~N~~Le~ki~~l~~~~~~~~~~~~~~ye~-ei~~lR~~v~~l~~ek~~l~le~~~l~~~~ed  143 (147)
                      |.-.-++....||.+...|..++..++.........++. |+. ....|...|..+..++..|+-++..+..-+|.
T Consensus         9 RYEtQ~E~N~QLekqi~~l~~kiek~r~n~~drl~siR~-ye~Ms~~~l~~llkqLEkeK~~Le~qlk~~e~rLeQ   83 (129)
T PF15372_consen    9 RYETQLELNDQLEKQIIILREKIEKIRGNPSDRLSSIRR-YEQMSVESLNQLLKQLEKEKRSLENQLKDYEWRLEQ   83 (129)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccccHHHHH-HhhccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            444445566677788888888888777654321222222 221 34678888888889999998888777665553

>PF12718 Tropomyosin_1: Tropomyosin like; InterPro: IPR000533 Tropomyosins [], are a family of closely related proteins present in muscle and non-muscle cells

Probab=83.23  E-value=16  Score=27.05  Aligned_cols=32  Identities=19%  Similarity=0.314  Sum_probs=17.8

Q ss_pred             HHhhHHHHHhhhhhhHHHHHHHHHHHHHHHhh
Q psy20            66 LNDRLAQYIELVQKLQNDKASLEYSLYSIEES   97 (147)
Q Consensus        66 LNdRLA~YIekVR~LE~~N~~Le~ki~~l~~~   97 (147)
                      ..+|.-.+=.+|+.||+.|..++.+|..|..+
T Consensus        12 a~~r~e~~e~~~K~le~~~~~~E~EI~sL~~K   43 (143)
T PF12718_consen   12 AQDRAEELEAKVKQLEQENEQKEQEITSLQKK   43 (143)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444444456666666666666666655544

In striated muscle, tropomyosin mediate the interactions between the troponin complex and actin so as to regulate muscle contraction []. The role of tropomyosin in smooth muscle and non-muscle tissues is not clear. Tropomyosin is an alpha-helical protein that forms a coiled-coil structure of 2 parallel helices containing 2 sets of 7 alternating actin binding sites []. There are multiple cell-specific isoforms, created by differential splicing of the messenger RNA from one gene, but the proportions of the isoforms vary between different cell types. Muscle isoforms of tropomyosin are characterised by having 284 amino acid residues and a highly conserved N-terminal region, whereas non-muscle forms are generally smaller and are heterogeneous in their N-terminal region. This entry represents tropomyosin (Tmp) 1, 2 and 3. Within the yeast Tmp1 and Tmp2, biochemical and sequence analyses indicate that Tpm2 spans four actin monomers along a filament, whereas Tpm1 spans five. Despite its shorter length, Tpm2 can compete with Tpm1 for binding to F-actin. Over-expression of Tpm2 in vivo alters the axial budding of haploids to a bipolar pattern, and this can be partially suppressed by co-over-expression of Tpm1. This suggests distinct functions for the two tropomyosins, and indicates that the ratio between them is important for correct morphogenesis [].

>PF14662 CCDC155: Coiled-coil region of CCDC155

Probab=83.23  E-value=21  Score=28.18  Aligned_cols=36  Identities=17%  Similarity=0.333  Sum_probs=25.0

Q ss_pred             HHHHhhHHHHHhhhhhhHHHHHHHHHHHHHHHhhcC
Q psy20            64 KNLNDRLAQYIELVQKLQNDKASLEYSLYSIEESHT   99 (147)
Q Consensus        64 q~LNdRLA~YIekVR~LE~~N~~Le~ki~~l~~~~~   99 (147)
                      ..|+..=.......|.||.+|..|..+|..|....+
T Consensus        77 ~~lEE~~~~L~aq~rqlEkE~q~L~~~i~~Lqeen~  112 (193)
T PF14662_consen   77 KSLEEENRSLLAQARQLEKEQQSLVAEIETLQEENG  112 (193)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            334444455566778888888888888888777654

>PF04012 PspA_IM30: PspA/IM30 family; InterPro: IPR007157 This family includes PspA a protein that suppresses sigma54-dependent transcription

Probab=82.88  E-value=16  Score=28.40  Aligned_cols=89  Identities=19%  Similarity=0.235  Sum_probs=61.9

Q ss_pred             hHHHHHHHHHhhHHHHHhhhhhhHHHHHHHHHHHHHHHhhcCCc----ccCc-------hHHHHHHHHHHHHHHHHHHHH
Q psy20            58 QEKNELKNLNDRLAQYIELVQKLQNDKASLEYSLYSIEESHTTE----FKKV-------KAASEKEIEDIRKALDRESSS  126 (147)
Q Consensus        58 ~EKe~mq~LNdRLA~YIekVR~LE~~N~~Le~ki~~l~~~~~~~----~~~~-------~~~ye~ei~~lR~~v~~l~~e  126 (147)
                      .=.+.+..+..-++..+-..+.|+.+...++.++..|..+-...    ...+       ...|+..+..+..+++.....
T Consensus        34 d~e~~l~~a~~~~a~~~a~~~~le~~~~~~~~~~~~~~~~A~~Al~~g~edLAr~al~~k~~~e~~~~~l~~~~~~~~~~  113 (221)
T PF04012_consen   34 DMEEQLRKARQALARVMANQKRLERKLDEAEEEAEKWEKQAELALAAGREDLAREALQRKADLEEQAERLEQQLDQAEAQ  113 (221)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33556777888889888888899998888888888776653200    1111       245666777777777777777


Q ss_pred             HHHHHHHHHHHHHHHHhhhc
Q psy20           127 KSALAIEKRRLLDELLDLKN  146 (147)
Q Consensus       127 k~~l~le~~~l~~~~ed~r~  146 (147)
                      -..|...+..+...+.+++.
T Consensus       114 ~~~l~~~l~~l~~kl~e~k~  133 (221)
T PF04012_consen  114 VEKLKEQLEELEAKLEELKS  133 (221)
T ss_pred             HHHHHHHHHHHHHHHHHHHH
Confidence            77777777777777776654

The PspA protein, a negative regulator of the Escherichia coli phage shock psp operon, is produced when virulence factors are exported through secretins in many Gram-negative pathogenic bacteria and its homologue in plants, VIPP1, plays a critical role in thylakoid biogenesis, essential for photosynthesis. Activation of transcription by the enhancer-dependent bacterial sigma54-containing RNA polymerase occurs through ATP hydrolysis-driven protein conformational changes enabled by activator proteins that belong to the large AAA(+) mechanochemical protein family. It has been shown that PspA directly and specifically acts upon and binds to the AAA(+) domain of the PspF transcription activator [].

>PF14197 Cep57_CLD_2: Centrosome localisation domain of PPC89

Probab=82.77  E-value=11  Score=24.70  Aligned_cols=27  Identities=22%  Similarity=0.180  Sum_probs=11.2

Q ss_pred             HHHHHHHHHhhHHHHHhhhhhhHHHHHHHH
Q psy20            59 EKNELKNLNDRLAQYIELVQKLQNDKASLE   88 (147)
Q Consensus        59 EKe~mq~LNdRLA~YIekVR~LE~~N~~Le   88 (147)
                      ++.+|++=||++.   .++-..+..|+.|.
T Consensus         6 ~~~~Lr~rLd~~~---rk~~~~~~~~k~L~   32 (69)
T PF14197_consen    6 EIATLRNRLDSLT---RKNSVHEIENKRLR   32 (69)
T ss_pred             HHHHHHHHHHHHH---HHHHHHHHHHHHHH
Confidence            3344444444433   34444444444443

>PHA01750 hypothetical protein

Probab=82.60  E-value=3.9  Score=26.93  Aligned_cols=37  Identities=19%  Similarity=0.423  Sum_probs=24.0

Q ss_pred             CchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcC
Q psy20           104 KVKAASEKEIEDIRKALDRESSSKSALAIEKRRLLDELLDLKNK  147 (147)
Q Consensus       104 ~~~~~ye~ei~~lR~~v~~l~~ek~~l~le~~~l~~~~ed~r~K  147 (147)
                      .+..+...|+.+|+.+|.++.       +.+||+...+.+++.|
T Consensus        35 AvkeIV~~ELdNL~~ei~~~k-------ikqDnl~~qv~eik~k   71 (75)
T PHA01750         35 AVKEIVNSELDNLKTEIEELK-------IKQDELSRQVEEIKRK   71 (75)
T ss_pred             HHHHHHHHHHHHHHHHHHHHH-------HhHHHHHHHHHHHHHh
Confidence            345666677777777776554       5666777777776643

>PF04156 IncA: IncA protein; InterPro: IPR007285 Chlamydia trachomatis is an obligate intracellular bacterium that develops within a parasitophorous vacuole termed an inclusion

Probab=82.37  E-value=19  Score=27.23  Aligned_cols=35  Identities=26%  Similarity=0.404  Sum_probs=17.4

Q ss_pred             hHHHHHHHHHhhHHHHHhhhhhhHHHHHHHHHHHH
Q psy20            58 QEKNELKNLNDRLAQYIELVQKLQNDKASLEYSLY   92 (147)
Q Consensus        58 ~EKe~mq~LNdRLA~YIekVR~LE~~N~~Le~ki~   92 (147)
                      ..+..++.|...|..+=+++..++.+...+...+.
T Consensus        85 ~~~~~l~~l~~el~~l~~~~~~~~~~l~~~~~~~~  119 (191)
T PF04156_consen   85 ELQQQLQQLQEELDQLQERIQELESELEKLKEDLQ  119 (191)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44455555555555555555555544444444333

The inclusion is nonfusogenic with lysosomes but intercepts lipids from a host cell exocytic pathway. Initiation of chlamydial development is concurrent with modification of the inclusion membrane by a set of C. trachomatis-encoded proteins collectively designated Incs. One of these Incs, IncA (Inclusion membrane protein A), is functionally associated with the homotypic fusion of inclusions [].

>PF02050 FliJ: Flagellar FliJ protein; InterPro: IPR012823 Many flagellar proteins are exported by a flagellum-specific export pathway

Probab=82.22  E-value=13  Score=25.10  Aligned_cols=81  Identities=16%  Similarity=0.197  Sum_probs=54.5

Q ss_pred             HHHHHHHHHhhHHHHHhhhhhhHHHHHHHHHHHHHHHhhcCCcccCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy20            59 EKNELKNLNDRLAQYIELVQKLQNDKASLEYSLYSIEESHTTEFKKVKAASEKEIEDIRKALDRESSSKSALAIEKRRLL  138 (147)
Q Consensus        59 EKe~mq~LNdRLA~YIekVR~LE~~N~~Le~ki~~l~~~~~~~~~~~~~~ye~ei~~lR~~v~~l~~ek~~l~le~~~l~  138 (147)
                      .+..|......+..+..++..|+..-..+...+.... . + ........|...+..+...|.........+..++...+
T Consensus         3 a~~~l~~~~~~~~~~~~~l~~L~~~~~~~~~~~~~~~-~-~-~s~~~~~~~~~~~~~l~~~i~~~~~~~~~~~~~~~~~r   79 (123)
T PF02050_consen    3 AEQELAEAQQELQEAEEQLEQLQQERQEYQEQLSESQ-Q-G-VSVAQLRNYQRYISALEQAIQQQQQELERLEQEVEQAR   79 (123)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT------S-G-GGHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc-C-C-CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3456677777788888888888777777766665544 2 2 24455666788888888888888888777777777766


Q ss_pred             HHHH
Q psy20           139 DELL  142 (147)
Q Consensus       139 ~~~e  142 (147)
                      ..+.
T Consensus        80 ~~l~   83 (123)
T PF02050_consen   80 EELQ   83 (123)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            6543

Attempts have been made to characterise the apparatus responsible for this process, by designing assays to screen for mutants with export defects []. Experiments involving filament removal from temperature-sensitive flagellar mutants of Salmonella typhimurium have shown that, while most mutants were able to regrow filaments, flhA, fliH, fliI and fliN mutants showed no or greatly reduced regrowth. This suggests that the corresponding gene products are involved in the process of flagellum-specific export. The sequences of fliH, fliI and the adjacent gene, fliJ, have been deduced. FliJ was shown to encode a protein of molecular mass 17,302 Da []. It is a membrane-associated protein that affects chemotactic events, mutations in FliJ result in failure to respond to chemotactic stimuli.; GO: 0003774 motor activity, 0001539 ciliary or flagellar motility, 0006935 chemotaxis, 0009288 bacterial-type flagellum, 0016020 membrane, 0044461 bacterial-type flagellum part; PDB: 3AJW_A.

>PF04849 HAP1_N: HAP1 N-terminal conserved region; InterPro: IPR006933 This family is defined by an N-terminal conserved region found in several huntingtin-associated protein 1 (HAP1) homologues

Probab=81.59  E-value=12  Score=31.42  Aligned_cols=25  Identities=12%  Similarity=0.231  Sum_probs=19.3

Q ss_pred             HHhhhhhhHHHHHHHHHHHHHHHhh
Q psy20            73 YIELVQKLQNDKASLEYSLYSIEES   97 (147)
Q Consensus        73 YIekVR~LE~~N~~Le~ki~~l~~~   97 (147)
                      .=.|+|.||.+|..|..+...+...
T Consensus       165 Lq~Klk~LEeEN~~LR~Ea~~L~~e  189 (306)
T PF04849_consen  165 LQEKLKSLEEENEQLRSEASQLKTE  189 (306)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhhHH
Confidence            3368889999999998888777643

HAP1 binds to huntingtin in a polyglutamine repeat-length-dependent manner. However, its possible role in the pathogenesis of Huntingtons disease is unclear. This family also includes a similar N-terminal conserved region from hypothetical protein products of ALS2CR3 genes found in the human juvenile amyotrophic lateral sclerosis critical region 2q33-2q34 [].

>PRK13694 hypothetical protein; Provisional

Probab=81.53  E-value=10  Score=25.92  Aligned_cols=51  Identities=18%  Similarity=0.326  Sum_probs=35.3

Q ss_pred             HhhHHHHHhhhhhhHHHHHHHHHHHHHHHhhcCCcccCchHHHHHHHHHHHHH
Q psy20            67 NDRLAQYIELVQKLQNDKASLEYSLYSIEESHTTEFKKVKAASEKEIEDIRKA  119 (147)
Q Consensus        67 NdRLA~YIekVR~LE~~N~~Le~ki~~l~~~~~~~~~~~~~~ye~ei~~lR~~  119 (147)
                      -++|-.||+|+-.||++-+.+...|......-. ..+ ........|=.||++
T Consensus        11 ~~~Lr~fIERIERLEeEkk~i~~dikdVyaEAK-~~G-fD~K~~r~ii~lRK~   61 (83)
T PRK13694         11 KEQLRAFIERIERLEEEKKTISDDIKDVYAEAK-GNG-FDVKALKTIIRLRKK   61 (83)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-hcC-CcHHHHHHHHHHHcC
Confidence            477899999999999999999999988766543 122 222223445455544

>KOG1029|consensus

Probab=80.61  E-value=23  Score=33.74  Aligned_cols=94  Identities=23%  Similarity=0.266  Sum_probs=61.0

Q ss_pred             hhhhhHhHHHHHHHHHhhHHHHHhhhhhhHHHHHHHHHHHHHHHhhcCCccc---CchH---HHHHHHHHHHHHHHHHHH
Q psy20            52 TIISRRQEKNELKNLNDRLAQYIELVQKLQNDKASLEYSLYSIEESHTTEFK---KVKA---ASEKEIEDIRKALDRESS  125 (147)
Q Consensus        52 ~~~~r~~EKe~mq~LNdRLA~YIekVR~LE~~N~~Le~ki~~l~~~~~~~~~---~~~~---~ye~ei~~lR~~v~~l~~  125 (147)
                      +...+.-+.-+|..|..|+-.|-++.-.|-.+..+|..++............   .+..   .-+.-+..++.+++++..
T Consensus       477 ~~~q~e~~isei~qlqarikE~q~kl~~l~~Ekq~l~~qlkq~q~a~~~~~~~~s~L~aa~~~ke~irq~ikdqldelsk  556 (1118)
T KOG1029|consen  477 VTKQRELMISEIDQLQARIKELQEKLQKLAPEKQELNHQLKQKQSAHKETTQRKSELEAARRKKELIRQAIKDQLDELSK  556 (1118)
T ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHhhhhccCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344555666777777777777778788888888888888765544432222   1222   223345678888888888


Q ss_pred             HHHHHHHHHHHHHHHHHhhh
Q psy20           126 SKSALAIEKRRLLDELLDLK  145 (147)
Q Consensus       126 ek~~l~le~~~l~~~~ed~r  145 (147)
                      |...-.-+++.....+++||
T Consensus       557 E~esk~~eidi~n~qlkelk  576 (1118)
T KOG1029|consen  557 ETESKLNEIDIFNNQLKELK  576 (1118)
T ss_pred             HHHHHHHhhhhHHHHHHHHH
Confidence            88777666666665555554

>KOG1962|consensus

Probab=80.61  E-value=11  Score=30.24  Aligned_cols=16  Identities=19%  Similarity=0.254  Sum_probs=8.7

Q ss_pred             HhhHHHHHhhhhhhHH
Q psy20            67 NDRLAQYIELVQKLQN   82 (147)
Q Consensus        67 NdRLA~YIekVR~LE~   82 (147)
                      =+|+..||.+...|+.
T Consensus       113 I~R~~~ll~~l~~l~~  128 (216)
T KOG1962|consen  113 IRRLHTLLRELATLRA  128 (216)
T ss_pred             HHHHHHHHHHHHHHHh
Confidence            3555566655555544

>PF05529 Bap31: B-cell receptor-associated protein 31-like ; InterPro: IPR008417 Bap31 is a polytopic integral protein of the endoplasmic reticulum membrane and a substrate of caspase-8

Probab=80.61  E-value=17  Score=27.81  Aligned_cols=76  Identities=14%  Similarity=0.156  Sum_probs=53.3

Q ss_pred             HHHHHhhhhhhHHHHHHHHHHHHHHHhhcCCcccCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q psy20            70 LAQYIELVQKLQNDKASLEYSLYSIEESHTTEFKKVKAASEKEIEDIRKALDRESSSKSALAIEKRRLLDELLDLK  145 (147)
Q Consensus        70 LA~YIekVR~LE~~N~~Le~ki~~l~~~~~~~~~~~~~~ye~ei~~lR~~v~~l~~ek~~l~le~~~l~~~~ed~r  145 (147)
                      |.-.|.+|..+=.+...++.++..+..+..............+...+..+|.++..+-...+.+++.++.+++.+.
T Consensus       113 L~l~I~r~~~li~~l~~~~~~~~~~~kq~~~~~~~~~~~~~~~~~~~~~ei~~lk~el~~~~~~~~~LkkQ~~~l~  188 (192)
T PF05529_consen  113 LSLVIRRVHSLIKELIKLEEKLEALKKQAESASEAAEKLLKEENKKLSEEIEKLKKELEKKEKEIEALKKQSEGLQ  188 (192)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344799999999999999998877665432122222223456667788888888888888888888888887763

Bap31 is cleaved within its cytosolic domain, generating pro-apoptotic p20 Bap31 [].; GO: 0006886 intracellular protein transport, 0005783 endoplasmic reticulum, 0016021 integral to membrane

>PF07926 TPR_MLP1_2: TPR/MLP1/MLP2-like protein; InterPro: IPR012929 This domain is found in a number of proteins, including TPR protein (P12270 from SWISSPROT) and yeast myosin-like proteins 1 (MLP1, Q02455 from SWISSPROT) and 2 (MLP2, P40457 from SWISSPROT)

Probab=80.19  E-value=20  Score=25.99  Aligned_cols=32  Identities=16%  Similarity=0.233  Sum_probs=26.0

Q ss_pred             chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy20           105 VKAASEKEIEDIRKALDRESSSKSALAIEKRR  136 (147)
Q Consensus       105 ~~~~ye~ei~~lR~~v~~l~~ek~~l~le~~~  136 (147)
                      -...|+.+|.++...++++...|.-|--+|+.
T Consensus        99 qk~~le~e~~~~~~r~~dL~~QN~lLh~QlE~  130 (132)
T PF07926_consen   99 QKEQLEKELSELEQRIEDLNEQNKLLHDQLES  130 (132)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            35788899999999999999988877766654

These proteins share a number of features; for example, they all have coiled-coil regions and all three are associated with nuclear pores [, , ]. TPR is thought to be a component of nuclear pore complex- attached intranuclear filaments [], and is implicated in nuclear protein import []. Moreover, its N-terminal region is involved in the activation of oncogenic kinases, possibly by mediating the dimerisation of kinase domains or by targeting these kinases to the nuclear pore complex []. MLP1 and MLP2 are involved in the process of telomere length regulation, where they are thought to interact with proteins such as Tel1p and modulate their activity []. ; GO: 0006606 protein import into nucleus, 0005643 nuclear pore

---

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	147
3s4r_A	93	Vimentin; alpha-helix, cytoskeleton, intermediate	5e-16
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	4e-06
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	3e-04

>3s4r_A Vimentin; alpha-helix, cytoskeleton, intermediate filament, structural; 2.45A {Homo sapiens} PDB: 3ssu_A Length = 93

 Score = 67.6 bits (166), Expect = 5e-16
 Identities = 24/93 (25%), Positives = 51/93 (54%), Gaps = 3/93 (3%)

Query: 55  SRRQEKNELKNLNDRLAQYIELVQKLQNDKASLEYSLYSIEESHTTEFKKVKAASEKEIE 114
           +R  EK EL+ LNDR A  I+ V+ L+     L      +E+       ++    E+E+ 
Sbjct: 3   TRTNEKVELQELNDRFANLIDKVRFLEQQNKILL---AELEQLKGQGKSRLGDLYEEEMR 59

Query: 115 DIRKALDRESSSKSALAIEKRRLLDELLDLKNK 147
           ++R+ +D+ ++ K+ + +E+  L ++++ L+ K
Sbjct: 60  ELRRQVDQLTNDKARVEVERDNLAEDIMRLREK 92

>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin subfragment 2, heavy meromyosin, essential light chain, motor protein; HET: MLY; 20.00A {Gallus gallus} SCOP: i.15.1.1 PDB: 3j04_A 3dtp_B 3dtp_A Length = 1184

 Score = 44.4 bits (105), Expect = 4e-06
 Identities = 21/98 (21%), Positives = 39/98 (39%), Gaps = 6/98 (6%)

Query: 56   RRQEKNELKNLNDRLAQYIELVQKLQNDKASLEYSLYSIEESHTTEFKKV------KAAS 109
            +     ++K + D +    +   KL  ++  LE  +  +  +   E +K       K   
Sbjct: 978  KVTADGKIKKMEDDILIMEDQNNKLTKERKLLEERVSDLTTNLAEEEEKAKNLTKLKNKH 1037

Query: 110  EKEIEDIRKALDRESSSKSALAIEKRRLLDELLDLKNK 147
            E  I ++   L +E  S+  L   KR+L  E  DL  +
Sbjct: 1038 ESMISELEVRLKKEEKSRQELEKIKRKLEGESSDLHEQ 1075

>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 = 38.7 bits (89), Expect = 3e-04
 Identities = 25/157 (15%), Positives = 51/157 (32%), Gaps = 37/157 (23%)

Query: 27  SEVREEPPQPQPQ-----SQPPRP---GSPLSPTIISRRQEKNELKN--LNDRLAQYIEL 76
           S ++ E  QP         Q  R        +   +SR Q   +L+   L  R A+ + +
Sbjct: 96  SPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLI 155

Query: 77  ------------VQKLQNDK--ASLEYSLY--SIEESHTTE-----FKKVKAASEKEIED 115
                       +    + K    +++ ++  +++  ++ E      +K+    +     
Sbjct: 156 DGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTS 215

Query: 116 IRKALDRESSSKSALAIEKRRLLDE------LLDLKN 146
                        ++  E RRLL        LL L N
Sbjct: 216 RSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLN 252

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	147
3s4r_A	93	Vimentin; alpha-helix, cytoskeleton, intermediate	99.96
1gk7_A	39	Vimentin; intermediate filament, heptad repeat; 1.	99.76
3ol1_A	119	Vimentin; structural genomics, PSI-2, protein stru	98.72
3swk_A	86	Vimentin; cytoskeleton, intermediate filament, alp	97.96
3swk_A	86	Vimentin; cytoskeleton, intermediate filament, alp	94.62
3ol1_A	119	Vimentin; structural genomics, PSI-2, protein stru	93.35
2wt7_B	90	Transcription factor MAFB; transcription, transcri	91.62
3tnu_B	129	Keratin, type II cytoskeletal 5; coiled-coil, stru	91.35
3q8t_A	96	Beclin-1; autophagy, ATG14L uvrag, apoptosis; 1.90	91.3
2ocy_A	154	RAB guanine nucleotide exchange factor SEC2; RAB,	91.21
3tnu_A	131	Keratin, type I cytoskeletal 14; coiled-coil, stru	91.15
1c1g_A	284	Tropomyosin; contractIle protein; 7.00A {Sus scrof	90.74
2v71_A	189	Nuclear distribution protein NUDE-like 1; developm	90.0
1p9i_A	31	Cortexillin I/GCN4 hybrid peptide; coiled-coil, un	89.37
3na7_A	256	HP0958; flagellar biogenesis, flagellum export, C4	89.03
3he5_A	49	Synzip1; heterodimeric coiled-coil, de novo protei	88.73
2dfs_A	1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	87.82
2v66_B	111	Nuclear distribution protein NUDE-like 1; structur	86.97
2lf0_A	123	Uncharacterized protein YIBL; two-domain protein,	86.0
1t2k_D	61	Cyclic-AMP-dependent transcription factor ATF-2; p	85.86
2wt7_A	63	Proto-oncogene protein C-FOS; transcription, trans	85.46
1jnm_A	62	Proto-oncogene C-JUN; BZIP, protein-DNA complex, t	85.42
3lay_A	175	Zinc resistance-associated protein; salmonella typ	84.14
1deq_A	390	Fibrinogen (alpha chain); coiled-coil, blood clott	83.64
1dh3_A	55	Transcription factor CREB; protein-DNA complex, tr	83.19
1deq_A	390	Fibrinogen (alpha chain); coiled-coil, blood clott	82.33
1wle_A	501	Seryl-tRNA synthetase; ligase; HET: SRP; 1.65A {Bo	82.06
2oqq_A	42	Transcription factor HY5; homodimer leucine zipper	81.02
1ses_A	421	Seryl-tRNA synthetase; ligase; HET: AHX AMP; 2.50A	80.77
1lq7_A	67	Alpha3W; three helix bundle, de novo protein; NMR	80.64
3m91_A	51	Proteasome-associated ATPase; coil COIL alpha heli	80.51

>3s4r_A Vimentin; alpha-helix, cytoskeleton, intermediate filament, structural; 2.45A {Homo sapiens} PDB: 3ssu_A

Probab=99.96  E-value=1.1e-30  Score=181.47  Aligned_cols=91  Identities=26%  Similarity=0.458  Sum_probs=82.8

Q ss_pred             hhhHhHHHHHHHHHhhHHHHHhhhhhhHHHHHHHHHHHHHHHhhcCCcccCchHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy20            54 ISRRQEKNELKNLNDRLAQYIELVQKLQNDKASLEYSLYSIEESHTTEFKKVKAASEKEIEDIRKALDRESSSKSALAIE  133 (147)
Q Consensus        54 ~~r~~EKe~mq~LNdRLA~YIekVR~LE~~N~~Le~ki~~l~~~~~~~~~~~~~~ye~ei~~lR~~v~~l~~ek~~l~le  133 (147)
                      ..|.+||++||+||||||+||||||+||++|+.|+.+|..++.+.   .+.++.+|+.+|.+||.+|+.++.++++++++
T Consensus         2 ~~R~~EKe~mq~LNdRlAsyIdKVR~LEqqN~~Le~~i~~l~~~~---~~~~~~~ye~~i~~Lr~~i~~~~~ek~~l~~e   78 (93)
T 3s4r_A            2 STRTNEKVELQELNDRFANLIDKVRFLEQQNKILLAELEQLKGQG---KSRLGDLYEEEMRELRRQVDQLTNDKARVEVE   78 (93)
T ss_dssp             ----CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc---CCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            468999999999999999999999999999999999999998753   56899999999999999999999999999999


Q ss_pred             HHHHHHHHHhhhcC
Q psy20           134 KRRLLDELLDLKNK  147 (147)
Q Consensus       134 ~~~l~~~~ed~r~K  147 (147)
                      +++++.++++||.|
T Consensus        79 ~dnl~~~~~~~k~K   92 (93)
T 3s4r_A           79 RDNLAEDIMRLREK   92 (93)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhh
Confidence            99999999999865

>1gk7_A Vimentin; intermediate filament, heptad repeat; 1.4A {Homo sapiens} SCOP: h.1.20.1 PDB: 3g1e_A

Probab=99.76  E-value=4.8e-19  Score=104.17  Aligned_cols=37  Identities=41%  Similarity=0.523  Sum_probs=35.1

Q ss_pred             HhHHHHHHHHHhhHHHHHhhhhhhHHHHHHHHHHHHH
Q psy20            57 RQEKNELKNLNDRLAQYIELVQKLQNDKASLEYSLYS   93 (147)
Q Consensus        57 ~~EKe~mq~LNdRLA~YIekVR~LE~~N~~Le~ki~~   93 (147)
                      .+||++||+||||||+||||||+||++|+.|+.+|..
T Consensus         2 ~~EKe~mq~LNdrlAsyidkVR~LE~~N~~Le~~i~~   38 (39)
T 1gk7_A            2 SNEKVELQELNDRFANYIDKVRFLEQQNKILLAELEQ   38 (39)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTT
T ss_pred             ccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            4899999999999999999999999999999999864

>3swk_A Vimentin; cytoskeleton, intermediate filament, alpha-helix, structural; 1.70A {Homo sapiens}

Probab=97.96  E-value=4.6e-06  Score=56.42  Aligned_cols=36  Identities=22%  Similarity=0.616  Sum_probs=33.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcC
Q psy20           112 EIEDIRKALDRESSSKSALAIEKRRLLDELLDLKNK  147 (147)
Q Consensus       112 ei~~lR~~v~~l~~ek~~l~le~~~l~~~~ed~r~K  147 (147)
                      +|++||.+|+.++.++++|.++++|++.++++||.|
T Consensus         1 Ei~eLr~qi~~l~~e~~~l~~e~dn~~~~~edfk~K   36 (86)
T 3swk_A            1 EMRELRRQVDQLTNDKARVEVERDNLAEDIMRLREK   36 (86)
T ss_dssp             CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHH
Confidence            478999999999999999999999999999999865

>3swk_A Vimentin; cytoskeleton, intermediate filament, alpha-helix, structural; 1.70A {Homo sapiens}

Probab=94.62  E-value=0.18  Score=33.59  Aligned_cols=40  Identities=23%  Similarity=0.356  Sum_probs=35.5

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q psy20           106 KAASEKEIEDIRKALDRESSSKSALAIEKRRLLDELLDLK  145 (147)
Q Consensus       106 ~~~ye~ei~~lR~~v~~l~~ek~~l~le~~~l~~~~ed~r  145 (147)
                      +...+.+|..||+.||+++..+..|+.+++.+..++.=+|
T Consensus        44 R~~~E~d~~~LrkdvD~a~l~r~dLE~kvesL~eEl~fLk   83 (86)
T 3swk_A           44 REEAENTLQSFRQDVDNASLARLDLERKVESLQEEIAFLK   83 (86)
T ss_dssp             HHHHHHHHHHHHTTHHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            4455778889999999999999999999999999998776

>2wt7_B Transcription factor MAFB; transcription, transcription regulation, nucleus, activator, repressor, DNA-binding, phosphoprotein, differentiation; 2.30A {Mus musculus} PDB: 2wty_A* 1k1v_A

Probab=91.62  E-value=1.4  Score=29.56  Aligned_cols=80  Identities=19%  Similarity=0.185  Sum_probs=52.0

Q ss_pred             HHHHhhHHHH-HhhhhhhHHHHHHHHHHHHHHHhhcCCcccCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy20            64 KNLNDRLAQY-IELVQKLQNDKASLEYSLYSIEESHTTEFKKVKAASEKEIEDIRKALDRESSSKSALAIEKRRLLDELL  142 (147)
Q Consensus        64 q~LNdRLA~Y-IekVR~LE~~N~~Le~ki~~l~~~~~~~~~~~~~~ye~ei~~lR~~v~~l~~ek~~l~le~~~l~~~~e  142 (147)
                      ..||..|..+ -+.|..|-+.-+.|....-...-...  ...-....+.+..+|..+++.+..++..+..+++.++...+
T Consensus         9 reLN~~L~gls~eev~~lKq~RRtlKNRgyAq~CR~K--r~~q~~~LE~e~~~L~~e~~~L~~e~~~~~~e~d~~k~k~~   86 (90)
T 2wt7_B            9 RELNRHLRGFTKDEVIRLKQKRRTLKNRGYAQSCRYK--RVQQKHHLENEKTQLIQQVEQLKQEVSRLARERDAYKVKSE   86 (90)
T ss_dssp             HHHHTTCTTCCHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCCHHHHHHHHHHHHhhhhhHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4677777544 34555555555555554433222111  11223456788889999999999999999999999998888


Q ss_pred             hhh
Q psy20           143 DLK  145 (147)
Q Consensus       143 d~r  145 (147)
                      +|.
T Consensus        87 ~L~   89 (90)
T 2wt7_B           87 KLA   89 (90)
T ss_dssp             TTC
T ss_pred             Hhc
Confidence            764

>3tnu_B Keratin, type II cytoskeletal 5; coiled-coil, structural support, cytosolic protein; 3.00A {Homo sapiens}

Probab=91.35  E-value=2.7  Score=29.47  Aligned_cols=38  Identities=16%  Similarity=0.321  Sum_probs=26.5

Q ss_pred             HHHHHHHHhhHHHHHhhhhhhHHHHHHHHHHHHHHHhh
Q psy20            60 KNELKNLNDRLAQYIELVQKLQNDKASLEYSLYSIEES   97 (147)
Q Consensus        60 Ke~mq~LNdRLA~YIekVR~LE~~N~~Le~ki~~l~~~   97 (147)
                      |.++..||..+-+.-..+-.|..+|..|+..|......
T Consensus        35 k~Ei~elrr~iq~L~~el~~l~~~~~~LE~~l~e~e~~   72 (129)
T 3tnu_B           35 KHEISEMNRMIQRLRAEIDNVKKQCANLQNAIADAEQR   72 (129)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHH
Confidence            56677777776666666667777778888777665443

>3q8t_A Beclin-1; autophagy, ATG14L uvrag, apoptosis; 1.90A {Rattus norvegicus}

Probab=91.30  E-value=2.3  Score=28.61  Aligned_cols=87  Identities=15%  Similarity=0.213  Sum_probs=67.0

Q ss_pred             HHHHHHHHhhHHHHHhhhhhhHHHHHHHHHHHHHHHhhcCCcccCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy20            60 KNELKNLNDRLAQYIELVQKLQNDKASLEYSLYSIEESHTTEFKKVKAASEKEIEDIRKALDRESSSKSALAIEKRRLLD  139 (147)
Q Consensus        60 Ke~mq~LNdRLA~YIekVR~LE~~N~~Le~ki~~l~~~~~~~~~~~~~~ye~ei~~lR~~v~~l~~ek~~l~le~~~l~~  139 (147)
                      ...++.|-.-=+..+.....||.+...|..+|..+..... .-..-...|-.+-++++.++.....+...|..++.....
T Consensus        10 ~~eL~~l~~eE~~L~~eL~~lEke~~~l~~el~~le~E~~-~L~~eE~~~w~eyn~~~~ql~e~~dE~~Sl~~q~~~~~~   88 (96)
T 3q8t_A           10 QRELKELALEEERLIQELEDVEKNRKVVAENLEKVQAEAE-RLDQEEAQYQREYSEFKRQQLELDDELKSVENQMRYAQM   88 (96)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHH-HHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3456666666677778888999999999999988766532 122223456667789999999999999999999999999


Q ss_pred             HHHhhhcC
Q psy20           140 ELLDLKNK  147 (147)
Q Consensus       140 ~~ed~r~K  147 (147)
                      .++.|+.|
T Consensus        89 qLdkL~K~   96 (96)
T 3q8t_A           89 QLDKLKKK   96 (96)
T ss_dssp             HHHHHHTC
T ss_pred             HHHHhhcC
Confidence            99998865

>2ocy_A RAB guanine nucleotide exchange factor SEC2; RAB, GEF, guanine exchange factor, coiled-coil, endocytosis/exocytosis complex; 3.30A {Saccharomyces cerevisiae} SCOP: h.1.33.1

Probab=91.21  E-value=1.9  Score=31.69  Aligned_cols=80  Identities=16%  Similarity=0.253  Sum_probs=46.8

Q ss_pred             HHHhhHHHHHhhhhhhHHHHHHHHHHHHHHHhhcCCc---------ccCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy20            65 NLNDRLAQYIELVQKLQNDKASLEYSLYSIEESHTTE---------FKKVKAASEKEIEDIRKALDRESSSKSALAIEKR  135 (147)
Q Consensus        65 ~LNdRLA~YIekVR~LE~~N~~Le~ki~~l~~~~~~~---------~~~~~~~ye~ei~~lR~~v~~l~~ek~~l~le~~  135 (147)
                      .||.+|..-|++.-.||.....+..++...+.+...-         -..-...+..++..|...+..-..-+...+.+..
T Consensus         3 sLStKLI~Ain~qs~LeD~L~~~R~el~~~~~ri~~lE~~r~~~~~l~~~~~~~~~e~~~L~~~l~~E~~~R~~aE~~~~   82 (154)
T 2ocy_A            3 ALSTQLIESVDKQSHLEEQLNKSLKTIASQKAAIENYNQLKEDYNTLKRELSDRDDEVKRLREDIAKENELRTKAEEEAD   82 (154)
T ss_dssp             THHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHTHHHHHHHHHHHHHHHHHHHHHHHHHHHTHHH
T ss_pred             chHHHHHHHHHhhccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5788888888888888887776666654332221100         0001234456666666666555555555566666


Q ss_pred             HHHHHHHhh
Q psy20           136 RLLDELLDL  144 (147)
Q Consensus       136 ~l~~~~ed~  144 (147)
                      .+..++++|
T Consensus        83 ~ie~ElEeL   91 (154)
T 2ocy_A           83 KLNKEVEDL   91 (154)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            666666665

>3tnu_A Keratin, type I cytoskeletal 14; coiled-coil, structural support, cytosolic protein; 3.00A {Homo sapiens}

Probab=91.15  E-value=2.9  Score=29.43  Aligned_cols=37  Identities=30%  Similarity=0.247  Sum_probs=18.2

Q ss_pred             HHHHHHHHhhHHHHHhhhhhhHHHHHHHHHHHHHHHh
Q psy20            60 KNELKNLNDRLAQYIELVQKLQNDKASLEYSLYSIEE   96 (147)
Q Consensus        60 Ke~mq~LNdRLA~YIekVR~LE~~N~~Le~ki~~l~~   96 (147)
                      |.++..||..+-+.-..+-.|..+|..|+..|.....
T Consensus        37 k~Ei~elrr~iq~L~~el~~l~~~~~sLE~~l~e~e~   73 (131)
T 3tnu_A           37 KSEISELRRTMQNLEIELQSQLSMKASLENSLEETKG   73 (131)
T ss_dssp             ----CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            4455555555544444445555566666666655443

>1c1g_A Tropomyosin; contractIle protein; 7.00A {Sus scrofa} SCOP: h.1.5.1 PDB: 2tma_A 2w49_A 2w4u_A

Probab=90.74  E-value=2.2  Score=31.39  Aligned_cols=34  Identities=15%  Similarity=0.138  Sum_probs=17.3

Q ss_pred             HHHHHHHHhhHHHHHhhhhhhHHHHHHHHHHHHH
Q psy20            60 KNELKNLNDRLAQYIELVQKLQNDKASLEYSLYS   93 (147)
Q Consensus        60 Ke~mq~LNdRLA~YIekVR~LE~~N~~Le~ki~~   93 (147)
                      |..|..|+..+..+...+..|+..-..|..++..
T Consensus         5 ~~~~~~l~~~~~~~~~~~~~l~~~l~~l~~~~~~   38 (284)
T 1c1g_A            5 KKKMQMLKLDKENALDRADEAEADKKAAEDRSKQ   38 (284)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3445555555555555555555544444444433

>2v71_A Nuclear distribution protein NUDE-like 1; developmental protein, nuclear protein, neurogenesis, cytosk LIS1 binding, differentiation; 2.24A {Rattus norvegicus}

Probab=90.00  E-value=0.95  Score=34.39  Aligned_cols=79  Identities=24%  Similarity=0.279  Sum_probs=38.8

Q ss_pred             HHHHHHhhHHHHHhhhhhhHHHHHHHHHHHHHHHhhcCCcccCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy20            62 ELKNLNDRLAQYIELVQKLQNDKASLEYSLYSIEESHTTEFKKVKAASEKEIEDIRKALDRESSSKSALAIEKRRLLDEL  141 (147)
Q Consensus        62 ~mq~LNdRLA~YIekVR~LE~~N~~Le~ki~~l~~~~~~~~~~~~~~ye~ei~~lR~~v~~l~~ek~~l~le~~~l~~~~  141 (147)
                      ++..|..--..+-.++|.||+.|-.|+.........    ...+...|...|...= .+..=..++..|.+++..++.++
T Consensus        96 el~~l~~~~~~l~~~ireLEq~NDdlEr~~R~~~~S----leD~e~kln~aiEr~a-lLE~El~EKe~l~~~~QRLkdE~  170 (189)
T 2v71_A           96 DLSQTRAIKEQLHKYVRELEQANDDLERAKRATIMS----LEDFEQRLNQAIERNA-FLESELDEKESLLVSVQRLKDEA  170 (189)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHH-HHHHHHHHHHHHHCCC-------
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHhh----HHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHH
Confidence            344455555556677888999999999887664332    2233444444443321 22222235667777777788887


Q ss_pred             Hhhh
Q psy20           142 LDLK  145 (147)
Q Consensus       142 ed~r  145 (147)
                      .|+|
T Consensus       171 rDLk  174 (189)
T 2v71_A          171 RDLR  174 (189)
T ss_dssp             ----
T ss_pred             HHHH
Confidence            7776

>1p9i_A Cortexillin I/GCN4 hybrid peptide; coiled-coil, unknown function; 1.17A {Synthetic} SCOP: h.1.10.1

Probab=89.37  E-value=0.48  Score=24.99  Aligned_cols=21  Identities=10%  Similarity=0.132  Sum_probs=17.4

Q ss_pred             hhHHHHHHHHHHHHHHHhhcC
Q psy20            79 KLQNDKASLEYSLYSIEESHT   99 (147)
Q Consensus        79 ~LE~~N~~Le~ki~~l~~~~~   99 (147)
                      .||.+|+.|..+..++..+.+
T Consensus        10 sleaenkqlkakveellakvg   30 (31)
T 1p9i_A           10 SLEAENKQLKAKVEELLAKVG   30 (31)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHHHHHHhc
Confidence            589999999999998876643

>3na7_A HP0958; flagellar biogenesis, flagellum export, C4 Zn-ribbon, coiled post-transcriptional, gene regulation, chaperone; HET: EPE; 2.20A {Helicobacter pylori}

Probab=89.03  E-value=6  Score=30.63  Aligned_cols=81  Identities=12%  Similarity=0.069  Sum_probs=46.4

Q ss_pred             HHHHHHHhhHHHHHhhhhhhHHHHHHHHHHHHHHHhhcCC--------cccCchHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy20            61 NELKNLNDRLAQYIELVQKLQNDKASLEYSLYSIEESHTT--------EFKKVKAASEKEIEDIRKALDRESSSKSALAI  132 (147)
Q Consensus        61 e~mq~LNdRLA~YIekVR~LE~~N~~Le~ki~~l~~~~~~--------~~~~~~~~ye~ei~~lR~~v~~l~~ek~~l~l  132 (147)
                      .++..|++++...-..+..++.+-+.++.+|..+..+...        ...+.+..+..+|..+...+..+..+...+.-
T Consensus        39 ~~~~~l~~~~~~~~~~l~d~~~~~~~~e~~i~~~~~ri~~~~~~l~~v~~~kE~~aL~kEie~~~~~i~~lE~eile~~e  118 (256)
T 3na7_A           39 NDKEAKNKAILNLEEEKLALKLQVSKNEQTLQDTNAKIASIQKKMSEIKSERELRSLNIEEDIAKERSNQANREIENLQN  118 (256)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4466677777777777777777777777777665544311        12333444555666655555555555444444


Q ss_pred             HHHHHHHHH
Q psy20           133 EKRRLLDEL  141 (147)
Q Consensus       133 e~~~l~~~~  141 (147)
                      +++.+...+
T Consensus       119 ~ie~~~~~l  127 (256)
T 3na7_A          119 EIKRKSEKQ  127 (256)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            444444433

>3he5_A Synzip1; heterodimeric coiled-coil, de novo protein; 1.75A {Artificial gene}

Probab=88.73  E-value=0.43  Score=27.65  Aligned_cols=39  Identities=31%  Similarity=0.428  Sum_probs=22.6

Q ss_pred             hhhhhhHHHHHHHHHHHHHHHhhcCCcccCchHHHHHHHHHHHHHHH
Q psy20            75 ELVQKLQNDKASLEYSLYSIEESHTTEFKKVKAASEKEIEDIRKALD  121 (147)
Q Consensus        75 ekVR~LE~~N~~Le~ki~~l~~~~~~~~~~~~~~ye~ei~~lR~~v~  121 (147)
                      +.|-.||.+|..|..+-  +.      ...+-.-.+++|.+||..|+
T Consensus        10 nevaslenenetlkkkn--lh------kkdliaylekeianlrkkie   48 (49)
T 3he5_A           10 NEVASLENENETLKKKN--LH------KKDLIAYLEKEIANLRKKIE   48 (49)
T ss_dssp             HHHHHHHHHHHHHHHHH--HH------HHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHhhcccHHHHHhc--cc------HHHHHHHHHHHHHHHHHHhc
Confidence            45666666666654442  11      12233445888999988774

>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp contractIle protein-transport protein complex; 24.00A {Gallus gallus}

Probab=87.82  E-value=3.9  Score=38.35  Aligned_cols=61  Identities=18%  Similarity=0.201  Sum_probs=31.6

Q ss_pred             HhhhhhhHHHHHHHHHHHHHHHhhcCCcccCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy20            74 IELVQKLQNDKASLEYSLYSIEESHTTEFKKVKAASEKEIEDIRKALDRESSSKSALAIEKRRLL  138 (147)
Q Consensus        74 IekVR~LE~~N~~Le~ki~~l~~~~~~~~~~~~~~ye~ei~~lR~~v~~l~~ek~~l~le~~~l~  138 (147)
                      -.+|..|+.++..|+.++..+.....    .....+.....+|...|..+..++..|+-+++.+.
T Consensus       983 ~~~v~~L~~e~~~l~~~~~~~~ke~~----~lee~~~~~~~~L~~kv~~L~~e~~~L~qq~~~l~ 1043 (1080)
T 2dfs_A          983 TNRVLSLQEEIAKLRKELHQTQTEKK----TIEEWADKYKHETEQLVSELKEQNTLLKTEKEELN 1043 (1080)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34555555555555555554333221    12233333334666666666666666666666555

>2v66_B Nuclear distribution protein NUDE-like 1; structural protein, developmental protein, structural protei phosphorylation, transport, microtubule; 2.10A {Homo sapiens}

Probab=86.97  E-value=5.4  Score=27.69  Aligned_cols=63  Identities=25%  Similarity=0.282  Sum_probs=28.6

Q ss_pred             hhhHHHHHHHHHHHHHHHhhcCCcccCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q psy20            78 QKLQNDKASLEYSLYSIEESHTTEFKKVKAASEKEIEDIRKALDRESSSKSALAIEKRRLLDELLDL  144 (147)
Q Consensus        78 R~LE~~N~~Le~ki~~l~~~~~~~~~~~~~~ye~ei~~lR~~v~~l~~ek~~l~le~~~l~~~~ed~  144 (147)
                      +.|-..|..|..++..|+.+-..    ...-....+..|...|..+...+..+...+-.+...-|||
T Consensus         6 rdL~~~~~~L~~E~e~~k~K~~~----~~~e~~~~~~~Lq~El~~lr~~~~~l~~~iReLEq~NDDL   68 (111)
T 2v66_B            6 RDLQADNQRLKYEVEALKEKLEH----QYAQSYKQVSVLEDDLSQTRAIKEQLHKYVRELEQANDDL   68 (111)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhchHH
Confidence            44555555555555555544320    1111123444555555555555555555444444444443

>2lf0_A Uncharacterized protein YIBL; two-domain protein, structural genomics, PSI-biology, protei structure initiative; NMR {Shigella flexneri}

Probab=86.00  E-value=3.5  Score=29.05  Aligned_cols=52  Identities=29%  Similarity=0.301  Sum_probs=30.8

Q ss_pred             hHhHHHHHHHHHhhHHHHHhhhhhhHHHHHHHHHHHHHHHhhcCCcccCchHHHHHHHHHHHHHHHHHH
Q psy20            56 RRQEKNELKNLNDRLAQYIELVQKLQNDKASLEYSLYSIEESHTTEFKKVKAASEKEIEDIRKALDRES  124 (147)
Q Consensus        56 r~~EKe~mq~LNdRLA~YIekVR~LE~~N~~Le~ki~~l~~~~~~~~~~~~~~ye~ei~~lR~~v~~l~  124 (147)
                      ...||.+||.|||||-.+              ..++..+..+   ....+...|..+++.|-.+|..+.
T Consensus         5 ke~~K~Eiq~L~drLD~~--------------~rKlaaa~~r---gd~~~i~qf~~E~~~l~k~I~~lk   56 (123)
T 2lf0_A            5 KEVEKNEIKRLSDRLDAI--------------RHQQADLSLV---EAADKYAELEKEKATLEAEIARLR   56 (123)
T ss_dssp             CCSHHHHHHHHHHHHHHH--------------HHHHHHSCTT---TCTTHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHH--------------HHHHHHHHhC---CCHHHHHHHHHHHHHHHHHHHHHH
Confidence            357899999999998643              1222222221   244555666666666666665443

>1t2k_D Cyclic-AMP-dependent transcription factor ATF-2; protein DNA complex, transcription/DNA complex; 3.00A {Homo sapiens} SCOP: h.1.3.1

Probab=85.86  E-value=2.5  Score=25.82  Aligned_cols=36  Identities=25%  Similarity=0.238  Sum_probs=30.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhc
Q psy20           111 KEIEDIRKALDRESSSKSALAIEKRRLLDELLDLKN  146 (147)
Q Consensus       111 ~ei~~lR~~v~~l~~ek~~l~le~~~l~~~~ed~r~  146 (147)
                      ..+.+|...++.+..+|..|..++..+..++..|+.
T Consensus        22 ~~~~~Le~~~~~L~~~n~~L~~~i~~L~~e~~~Lk~   57 (61)
T 1t2k_D           22 VWVQSLEKKAEDLSSLNGQLQSEVTLLRNEVAQLKQ   57 (61)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            466788889999999999999999999999888763

>2wt7_A Proto-oncogene protein C-FOS; transcription, transcription regulation, nucleus, activator, repressor, DNA-binding, phosphoprotein, differentiation; 2.30A {Mus musculus} PDB: 1fos_E* 1a02_F* 1s9k_D

Probab=85.46  E-value=2.7  Score=25.98  Aligned_cols=36  Identities=28%  Similarity=0.306  Sum_probs=30.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q psy20           110 EKEIEDIRKALDRESSSKSALAIEKRRLLDELLDLK  145 (147)
Q Consensus       110 e~ei~~lR~~v~~l~~ek~~l~le~~~l~~~~ed~r  145 (147)
                      ...+.+|...++.+..+|..|..++..+..++..|+
T Consensus        22 k~~~~~Le~~v~~L~~~n~~L~~ei~~L~~e~~~Lk   57 (63)
T 2wt7_A           22 RELTDTLQAETDQLEDEKSALQTEIANLLKEKEKLE   57 (63)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            356778888999999999999999999999888775

>1jnm_A Proto-oncogene C-JUN; BZIP, protein-DNA complex, transcription/DNA complex; 2.20A {Homo sapiens} SCOP: h.1.3.1 PDB: 1fos_F 2h7h_A 1t2k_C 1a02_J* 1s9k_E 1jun_A

Probab=85.42  E-value=2.3  Score=26.14  Aligned_cols=37  Identities=19%  Similarity=0.258  Sum_probs=32.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhc
Q psy20           110 EKEIEDIRKALDRESSSKSALAIEKRRLLDELLDLKN  146 (147)
Q Consensus       110 e~ei~~lR~~v~~l~~ek~~l~le~~~l~~~~ed~r~  146 (147)
                      ...+.+|...+..+..+|..|..++..+..++..|+.
T Consensus        21 k~~~~~Le~~v~~L~~~n~~L~~~v~~L~~e~~~Lk~   57 (62)
T 1jnm_A           21 LERIARLEEKVKTLKAQNSELASTANMLREQVAQLKQ   57 (62)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTC-
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3567788899999999999999999999999988864

>3lay_A Zinc resistance-associated protein; salmonella typhimurium L structural genomics, center for structural genomics of INFE diseases; 2.70A {Salmonella enterica subsp}

Probab=84.14  E-value=8.5  Score=28.61  Aligned_cols=64  Identities=17%  Similarity=0.315  Sum_probs=39.7

Q ss_pred             hhHhHHHHHHHHHhhHHHHHhhhhhhHHHHHHHHHHHHHHHhhcCCcccCchHHHHHHHHHHHHHHHH
Q psy20            55 SRRQEKNELKNLNDRLAQYIELVQKLQNDKASLEYSLYSIEESHTTEFKKVKAASEKEIEDIRKALDR  122 (147)
Q Consensus        55 ~r~~EKe~mq~LNdRLA~YIekVR~LE~~N~~Le~ki~~l~~~~~~~~~~~~~~ye~ei~~lR~~v~~  122 (147)
                      ...+.+.+|+.|-   ..|-.++..|-++-..+..++..+.....++...+..+ ..+|.++|.++..
T Consensus        68 LT~EQq~ql~~I~---~e~r~~~~~Lr~ql~akr~EL~aL~~a~~~DeakI~aL-~~Ei~~Lr~qL~~  131 (175)
T 3lay_A           68 LTTEQQATAQKIY---DDYYTQTSALRQQLISKRYEYNALLTASSPDTAKINAV-AKEMESLGQKLDE  131 (175)
T ss_dssp             CCHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHTSSSCCHHHHHHH-HHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHH-HHHHHHHHHHHHH
Confidence            3455667777774   45556777777777777777877766544434444444 4566676666543

>1dh3_A Transcription factor CREB; protein-DNA complex, transcription/DNA complex; HET: DNA; 3.00A {Mus musculus} SCOP: h.1.3.1

Probab=83.19  E-value=3.1  Score=25.12  Aligned_cols=38  Identities=29%  Similarity=0.368  Sum_probs=28.0

Q ss_pred             hhhHhHHHHHHHHHhhHHHHHhhhhhhHHHHHHHHHHHHHHHhhc
Q psy20            54 ISRRQEKNELKNLNDRLAQYIELVQKLQNDKASLEYSLYSIEESH   98 (147)
Q Consensus        54 ~~r~~EKe~mq~LNdRLA~YIekVR~LE~~N~~Le~ki~~l~~~~   98 (147)
                      ..+...++-+..|-+       +|..|+.+|..|..++..+....
T Consensus        15 rSR~RKk~~~~~LE~-------~v~~L~~eN~~L~~~~~~L~~~~   52 (55)
T 1dh3_A           15 ESRRKKKEYVKSLEN-------RVAVLENQNKTLIEELKALKDLY   52 (55)
T ss_dssp             HHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHTTS
T ss_pred             HHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHh
Confidence            345556666666654       57889999999999999887643

>1wle_A Seryl-tRNA synthetase; ligase; HET: SRP; 1.65A {Bos taurus}

Probab=82.06  E-value=9.2  Score=32.87  Aligned_cols=97  Identities=13%  Similarity=0.082  Sum_probs=58.9

Q ss_pred             CCChhhhhhHhHHHHHHHHHhhHH----HHHhhhhhhHHHHHHHHHHHHHHHhhcCCcccCchHHHH----------HHH
Q psy20            48 PLSPTIISRRQEKNELKNLNDRLA----QYIELVQKLQNDKASLEYSLYSIEESHTTEFKKVKAASE----------KEI  113 (147)
Q Consensus        48 ~~~~~~~~r~~EKe~mq~LNdRLA----~YIekVR~LE~~N~~Le~ki~~l~~~~~~~~~~~~~~ye----------~ei  113 (147)
                      |+=++...|.|--.-.+.|..|-.    ..|++|-.|.++-+.|..+++.++.....-...+...-.          .+.
T Consensus        39 pmlD~~~ir~n~~~v~~~l~~R~~~~~~~~~~~~~~ld~~~r~~~~~~~~l~~~rn~~sk~i~~~~~~~~~~~~~~~~~~  118 (501)
T 1wle_A           39 PLLDMESLCAYPEDAARALDLRKGELRSKDLPGIISTWQELRQLREQIRSLEEEKEAVTEAVRALVVNQDNSQVQQDPQY  118 (501)
T ss_dssp             CCCCHHHHHHSHHHHHHHHHHHTCSCCGGGHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCTTGGGCHHH
T ss_pred             CccCHHHHHhCHHHHHHHHHHcCCCcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCccccccccccH
Confidence            555666666654444467766643    248999999999999988888887665321222222110          134


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q psy20           114 EDIRKALDRESSSKSALAIEKRRLLDELLDL  144 (147)
Q Consensus       114 ~~lR~~v~~l~~ek~~l~le~~~l~~~~ed~  144 (147)
                      ..+..++..+..+...++.++..+..+++++
T Consensus       119 ~~l~~~~~~l~~~i~~l~~~~~~~~~~l~~~  149 (501)
T 1wle_A          119 QSLRARGREIRKQLTLLYPKEAQLEEQFYLR  149 (501)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4556666666666666666666666666543

>2oqq_A Transcription factor HY5; homodimer leucine zipper; 2.00A {Arabidopsis thaliana}

Probab=81.02  E-value=2.4  Score=24.45  Aligned_cols=21  Identities=29%  Similarity=0.461  Sum_probs=14.6

Q ss_pred             hhhhhhHHHHHHHHHHHHHHH
Q psy20            75 ELVQKLQNDKASLEYSLYSIE   95 (147)
Q Consensus        75 ekVR~LE~~N~~Le~ki~~l~   95 (147)
                      .+|+.||..|..||.++..+.
T Consensus        10 ~r~k~le~~naeLEervstLq   30 (42)
T 2oqq_A           10 NRVKDLENKNSELEERLSTLQ   30 (42)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHH
Confidence            567777777777777776654

>1ses_A Seryl-tRNA synthetase; ligase; HET: AHX AMP; 2.50A {Thermus thermophilus} SCOP: a.2.7.1 d.104.1.1 PDB: 1ser_A* 1set_A* 1sry_A

Probab=80.77  E-value=4.4  Score=33.92  Aligned_cols=91  Identities=15%  Similarity=0.126  Sum_probs=53.2

Q ss_pred             hhhHhHHHHHHHHHhhHHHH-HhhhhhhHHHHHHHHHHHHHHHhhcCCcccCchHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy20            54 ISRRQEKNELKNLNDRLAQY-IELVQKLQNDKASLEYSLYSIEESHTTEFKKVKAASEKEIEDIRKALDRESSSKSALAI  132 (147)
Q Consensus        54 ~~r~~EKe~mq~LNdRLA~Y-IekVR~LE~~N~~Le~ki~~l~~~~~~~~~~~~~~ye~ei~~lR~~v~~l~~ek~~l~l  132 (147)
                      ..|.|--.--+.|..|.... +++|-.|.++-+.+..+++.++.....-...+...-......+..++..+..+...++.
T Consensus         6 ~~r~~~~~~~~~~~~r~~~~~~~~~~~~~~~~r~~~~~~~~l~~~~n~~sk~i~~~~~~~~~~l~~~~~~~~~~~~~~~~   85 (421)
T 1ses_A            6 RLRQEPEVFHRAIREKGVALDLEALLALDREVQELKKRLQEVQTERNQVAKRVPKAPPEEKEALIARGKALGEEAKRLEE   85 (421)
T ss_dssp             HHHHCHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHSSSSCHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHhCHHHHHHHHHHhCCCcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccHHHHHHHHHHHHHHHHHHHH
Confidence            34444444455666665543 88888888888888888888776653111111100012344566666666666666666


Q ss_pred             HHHHHHHHHHhh
Q psy20           133 EKRRLLDELLDL  144 (147)
Q Consensus       133 e~~~l~~~~ed~  144 (147)
                      ++..+..+++++
T Consensus        86 ~~~~~~~~~~~~   97 (421)
T 1ses_A           86 ALREKEARLEAL   97 (421)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            666666666553

>1lq7_A Alpha3W; three helix bundle, de novo protein; NMR {} SCOP: k.9.1.1

Probab=80.64  E-value=7.5  Score=23.70  Aligned_cols=61  Identities=16%  Similarity=0.275  Sum_probs=38.6

Q ss_pred             hhhhhHHHHHHHHHHHHHHHhhcCCcccCchHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHH
Q psy20            76 LVQKLQNDKASLEYSLYSIEESHTTEFKKVKAASEKEIEDIRKALDRES--SSKSALAIEKRRLLDELL  142 (147)
Q Consensus        76 kVR~LE~~N~~Le~ki~~l~~~~~~~~~~~~~~ye~ei~~lR~~v~~l~--~ek~~l~le~~~l~~~~e  142 (147)
                      +|..||...+.|+.+...+-.     ..++..+ ...+++|...|+++.  -+..+++-++..+..++.
T Consensus         3 rvkaleekvkaleekvkalgg-----ggrieel-kkkweelkkkieelggggevkkveeevkkleeeik   65 (67)
T 1lq7_A            3 RVKALEEKVKALEEKVKALGG-----GGRIEEL-KKKWEELKKKIEELGGGGEVKKVEEEVKKLEEEIK   65 (67)
T ss_dssp             SHHHHHHHHHHHHHHHHHSCC-----SSSHHHH-HHHHHHHHHHHHHTTSSSTHHHHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHHHhcC-----CccHHHH-HHHHHHHHHHHHHhCCCcchhHHHHHHHHHHHHHh
Confidence            678888888888888766522     3444443 455667888887764  234455666666666554

>3m91_A Proteasome-associated ATPase; coil COIL alpha helix, ATP-binding, chaperone, nucleotide-BI proteasome, S-nitrosylation; 1.80A {Mycobacterium tuberculosis} PDB: 3m9h_A

Probab=80.51  E-value=6.8  Score=23.42  Aligned_cols=36  Identities=19%  Similarity=0.345  Sum_probs=23.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q psy20           110 EKEIEDIRKALDRESSSKSALAIEKRRLLDELLDLK  145 (147)
Q Consensus       110 e~ei~~lR~~v~~l~~ek~~l~le~~~l~~~~ed~r  145 (147)
                      +..+.+++.++..+...|.+|...+...+.++..++
T Consensus         8 ~~r~~~l~~~l~~L~~rN~rL~~~L~~AR~el~~Lk   43 (51)
T 3m91_A            8 ARDIHQLEARIDSLAARNSKLMETLKEARQQLLALR   43 (51)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            445567777777777777777766666555555543

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	147
d1seta1	110	Seryl-tRNA synthetase (SerRS) {Thermus thermophilu	91.84

>d1seta1 a.2.7.1 (A:1-110) Seryl-tRNA synthetase (SerRS) {Thermus thermophilus, strain hb27 [TaxId: 274]}

class: All alpha proteins
fold: Long alpha-hairpin
superfamily: tRNA-binding arm
family: Seryl-tRNA synthetase (SerRS)
domain: Seryl-tRNA synthetase (SerRS)
species: Thermus thermophilus, strain hb27 [TaxId: 274]

Probab=91.84  E-value=0.39  Score=31.11  Aligned_cols=90  Identities=16%  Similarity=0.137  Sum_probs=52.3

Q ss_pred             hhHhHHHHHHHHHhhHHHH-HhhhhhhHHHHHHHHHHHHHHHhhcCCcccCchHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy20            55 SRRQEKNELKNLNDRLAQY-IELVQKLQNDKASLEYSLYSIEESHTTEFKKVKAASEKEIEDIRKALDRESSSKSALAIE  133 (147)
Q Consensus        55 ~r~~EKe~mq~LNdRLA~Y-IekVR~LE~~N~~Le~ki~~l~~~~~~~~~~~~~~ye~ei~~lR~~v~~l~~ek~~l~le  133 (147)
                      .|.+-..--..|..|-..+ |++|-.|.++.+.|..++..++.....-...++..--.....+..++..+..+-..++.+
T Consensus         7 ir~n~e~v~~~l~~R~~~~~ld~i~~ld~~rr~l~~~~e~l~~~rN~~sk~i~k~~~~~~~~l~~~~k~lk~~i~~le~~   86 (110)
T d1seta1           7 LRQEPEVFHRAIREKGVALDLEALLALDREVQELKKRLQEVQTERNQVAKRVPKAPPEEKEALIARGKALGEEAKRLEEA   86 (110)
T ss_dssp             HHHCHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHGGGCCHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHhCHHHHHHHHHHcCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHHHHHHH
Confidence            3444444455565554444 888888999999888888888776531111121111223345555555666666666666


Q ss_pred             HHHHHHHHHhh
Q psy20           134 KRRLLDELLDL  144 (147)
Q Consensus       134 ~~~l~~~~ed~  144 (147)
                      +..+..++.++
T Consensus        87 ~~~~~~~l~~~   97 (110)
T d1seta1          87 LREKEARLEAL   97 (110)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            66666665554