RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy5624
(125 letters)
>gnl|CDD|240265 PTZ00100, PTZ00100, DnaJ chaperone protein; Provisional.
Length = 116
Score = 86.4 bits (214), Expect = 3e-23
Identities = 44/108 (40%), Positives = 63/108 (58%)
Query: 14 AILTGLGLAAVGYAGRYILKAAPMASARLNEALKALPKAESFANSKYYKGGFEPKMTKRE 73
A+ G G+ AV Y RY+ S ++ L + K GFE M+K E
Sbjct: 7 ALTFGGGVLAVRYGYRYLKNQKIFGSNNMSFPLSGFNPSLGSLFLKNDLKGFENPMSKSE 66
Query: 74 ASLILGVSQSANRMKIKEAHKRIITLNHPDRGGSPYLAAKINEAKDLL 121
A IL +S +A++ +I+EAHK+++ NHPD GGS Y+A+K+NEAKDLL
Sbjct: 67 AYKILNISPTASKERIREAHKQLMLRNHPDNGGSTYIASKVNEAKDLL 114
>gnl|CDD|197617 smart00271, DnaJ, DnaJ molecular chaperone homology domain.
Length = 60
Score = 41.5 bits (98), Expect = 3e-06
Identities = 17/51 (33%), Positives = 29/51 (56%), Gaps = 5/51 (9%)
Query: 77 ILGVSQSANRMKIKEAHKRIITLNHPDRGGSPYLAA-----KINEAKDLLE 122
ILGV + A+ +IK+A++++ HPD+ A +INEA ++L
Sbjct: 6 ILGVPRDASLDEIKKAYRKLALKYHPDKNPGDKEEAEEKFKEINEAYEVLS 56
>gnl|CDD|99751 cd06257, DnaJ, DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock
protein 40) proteins are highly conserved and play
crucial roles in protein translation, folding,
unfolding, translocation, and degradation. They act
primarily by stimulating the ATPase activity of Hsp70s,
an important chaperonine family. Hsp40 proteins are
characterized by the presence of a J domain, which
mediates the interaction with Hsp70. They may contain
other domains as well, and the architectures provide a
means of classification.
Length = 55
Score = 40.6 bits (96), Expect = 5e-06
Identities = 16/49 (32%), Positives = 28/49 (57%), Gaps = 4/49 (8%)
Query: 77 ILGVSQSANRMKIKEAHKRIITLNHPDRG----GSPYLAAKINEAKDLL 121
ILGV A+ +IK+A++++ HPD+ + +INEA ++L
Sbjct: 5 ILGVPPDASDEEIKKAYRKLALKYHPDKNPDDPEAEEKFKEINEAYEVL 53
>gnl|CDD|215804 pfam00226, DnaJ, DnaJ domain. DnaJ domains (J-domains) are
associated with hsp70 heat-shock system and it is
thought that this domain mediates the interaction.
DnaJ-domain is therefore part of a chaperone (protein
folding) system. The T-antigens, although not in Prosite
are confirmed as DnaJ containing domains from
literature.
Length = 63
Score = 37.9 bits (89), Expect = 6e-05
Identities = 19/49 (38%), Positives = 30/49 (61%), Gaps = 4/49 (8%)
Query: 77 ILGVSQSANRMKIKEAHKRIITLNHPDR-GGSPYLAAK---INEAKDLL 121
ILGV + A+ +IK+A++++ HPD+ G P K INEA ++L
Sbjct: 5 ILGVPRDASDEEIKKAYRKLALKYHPDKNPGDPAAEEKFKEINEAYEVL 53
>gnl|CDD|234368 TIGR03835, termin_org_DnaJ, terminal organelle assembly protein
TopJ. This model describes TopJ (MG_200, CbpA), a DnaJ
homolog and probable assembly protein of the Mycoplasma
terminal organelle. The terminal organelle is involved
in both cytadherence and gliding motility [Cellular
processes, Chemotaxis and motility].
Length = 871
Score = 40.6 bits (94), Expect = 6e-05
Identities = 22/58 (37%), Positives = 35/58 (60%), Gaps = 3/58 (5%)
Query: 71 KREASLILGVSQSANRMKIKEAHKRIITLNHPDRGGSPYLA---AKINEAKDLLEQSK 125
KR+ +LG+ + A+ +IK+A +++ HPDR +P A A+INEA D+L K
Sbjct: 1 KRDYYEVLGIDRDADEQEIKKAFRKLAKKYHPDRNKAPDAASIFAEINEANDVLSNPK 58
>gnl|CDD|240236 PTZ00037, PTZ00037, DnaJ_C chaperone protein; Provisional.
Length = 421
Score = 40.2 bits (94), Expect = 9e-05
Identities = 17/65 (26%), Positives = 33/65 (50%), Gaps = 14/65 (21%)
Query: 57 NSKYYKGGFEPKMTKREASLILGVSQSANRMKIKEAHKRIITLNHPDRGGSPYLAAKINE 116
N K Y+ +L +S+ +IK+A++++ +HPD+GG P +I+
Sbjct: 27 NEKLYE--------------VLNLSKDCTTSEIKKAYRKLAIKHHPDKGGDPEKFKEISR 72
Query: 117 AKDLL 121
A ++L
Sbjct: 73 AYEVL 77
>gnl|CDD|233829 TIGR02349, DnaJ_bact, chaperone protein DnaJ. This model
represents bacterial forms of DnaJ, part of the
DnaK-DnaJ-GrpE chaperone system. The three components
typically are encoded by consecutive genes. DnaJ
homologs occur in many genomes, typically not near DnaK
and GrpE-like genes; most such genes are not included by
this family. Eukaryotic (mitochondrial and chloroplast)
forms are not included in the scope of this family.
Length = 354
Score = 39.5 bits (93), Expect = 1e-04
Identities = 19/48 (39%), Positives = 29/48 (60%), Gaps = 3/48 (6%)
Query: 77 ILGVSQSANRMKIKEAHKRIITLNHPDRGGSPYLAAK---INEAKDLL 121
ILGVS+ A+ +IK+A++++ HPDR K INEA ++L
Sbjct: 5 ILGVSKDASEEEIKKAYRKLAKKYHPDRNKDKEAEEKFKEINEAYEVL 52
>gnl|CDD|237666 PRK14296, PRK14296, chaperone protein DnaJ; Provisional.
Length = 372
Score = 39.5 bits (92), Expect = 1e-04
Identities = 21/56 (37%), Positives = 35/56 (62%), Gaps = 3/56 (5%)
Query: 69 MTKREASLILGVSQSANRMKIKEAHKRIITLNHPDRGGSPYLAAK---INEAKDLL 121
M K++ +LGVS++A+ +I++A++++ HPD SP K INEA D+L
Sbjct: 1 MKKKDYYEVLGVSKTASEQEIRQAYRKLAKQYHPDLNKSPDAHDKMVEINEAADVL 56
>gnl|CDD|184603 PRK14282, PRK14282, chaperone protein DnaJ; Provisional.
Length = 369
Score = 38.6 bits (90), Expect = 3e-04
Identities = 16/36 (44%), Positives = 25/36 (69%)
Query: 69 MTKREASLILGVSQSANRMKIKEAHKRIITLNHPDR 104
K++ ILGVS++A + +IK A+KR++ HPDR
Sbjct: 1 REKKDYYEILGVSRNATQEEIKRAYKRLVKEWHPDR 36
>gnl|CDD|237668 PRK14301, PRK14301, chaperone protein DnaJ; Provisional.
Length = 373
Score = 37.8 bits (88), Expect = 5e-04
Identities = 19/55 (34%), Positives = 33/55 (60%), Gaps = 1/55 (1%)
Query: 69 MTKREASLILGVSQSANRMKIKEAHKRIITLNHPDRG-GSPYLAAKINEAKDLLE 122
M++R+ +LGVS+ A+ +IK+A++++ HPDR +P K EA + E
Sbjct: 1 MSQRDYYEVLGVSRDASEDEIKKAYRKLALQYHPDRNPDNPEAEQKFKEAAEAYE 55
>gnl|CDD|237656 PRK14280, PRK14280, chaperone protein DnaJ; Provisional.
Length = 376
Score = 37.8 bits (88), Expect = 6e-04
Identities = 18/54 (33%), Positives = 30/54 (55%)
Query: 69 MTKREASLILGVSQSANRMKIKEAHKRIITLNHPDRGGSPYLAAKINEAKDLLE 122
M KR+ +LGVS+SA++ +IK+A++++ HPD K E + E
Sbjct: 1 MAKRDYYEVLGVSKSASKDEIKKAYRKLSKKYHPDINKEEGADEKFKEISEAYE 54
>gnl|CDD|236757 PRK10767, PRK10767, chaperone protein DnaJ; Provisional.
Length = 371
Score = 36.7 bits (86), Expect = 0.001
Identities = 21/57 (36%), Positives = 34/57 (59%), Gaps = 4/57 (7%)
Query: 69 MTKREASLILGVSQSANRMKIKEAHKRIITLNHPDR-GGSPYLAAK---INEAKDLL 121
M KR+ +LGVS++A+ +IK+A++++ HPDR G K I EA ++L
Sbjct: 1 MAKRDYYEVLGVSRNASEDEIKKAYRKLAMKYHPDRNPGDKEAEEKFKEIKEAYEVL 57
>gnl|CDD|237659 PRK14287, PRK14287, chaperone protein DnaJ; Provisional.
Length = 371
Score = 36.5 bits (84), Expect = 0.002
Identities = 16/51 (31%), Positives = 31/51 (60%)
Query: 69 MTKREASLILGVSQSANRMKIKEAHKRIITLNHPDRGGSPYLAAKINEAKD 119
M+KR+ +LGV ++A+ ++K+A++++ HPD +P K E K+
Sbjct: 1 MSKRDYYEVLGVDRNASVDEVKKAYRKLARKYHPDVNKAPDAEDKFKEVKE 51
>gnl|CDD|237661 PRK14291, PRK14291, chaperone protein DnaJ; Provisional.
Length = 382
Score = 36.3 bits (84), Expect = 0.002
Identities = 21/55 (38%), Positives = 33/55 (60%), Gaps = 3/55 (5%)
Query: 70 TKREASLILGVSQSANRMKIKEAHKRIITLNHPDRGGSPYLAAK---INEAKDLL 121
K++ ILGVS++A + +IK+A++R+ HPD +P K INEA +L
Sbjct: 1 AKKDYYEILGVSRNATQEEIKKAYRRLARKYHPDFNKNPEAEEKFKEINEAYQVL 55
>gnl|CDD|237667 PRK14299, PRK14299, chaperone protein DnaJ; Provisional.
Length = 291
Score = 35.7 bits (82), Expect = 0.003
Identities = 21/56 (37%), Positives = 32/56 (57%), Gaps = 3/56 (5%)
Query: 69 MTKREASLILGVSQSANRMKIKEAHKRIITLNHPDRGGSPYLAAK---INEAKDLL 121
M ++ ILGV ++A++ +IK+A K++ HPD SP K INEA +L
Sbjct: 1 MAYKDYYAILGVPKNASQDEIKKAFKKLARKYHPDVNKSPGAEEKFKEINEAYTVL 56
>gnl|CDD|237662 PRK14292, PRK14292, chaperone protein DnaJ; Provisional.
Length = 371
Score = 35.2 bits (81), Expect = 0.004
Identities = 19/48 (39%), Positives = 30/48 (62%), Gaps = 3/48 (6%)
Query: 77 ILGVSQSANRMKIKEAHKRIITLNHPDRGGSPYLA---AKINEAKDLL 121
+LGVS++A+ +IK A++++ HPDR A A+INEA +L
Sbjct: 7 LLGVSRTASADEIKSAYRKLALKYHPDRNKEKGAAEKFAQINEAYAVL 54
>gnl|CDD|223560 COG0484, DnaJ, DnaJ-class molecular chaperone with C-terminal Zn
finger domain [Posttranslational modification, protein
turnover, chaperones].
Length = 371
Score = 35.3 bits (82), Expect = 0.004
Identities = 23/57 (40%), Positives = 34/57 (59%), Gaps = 4/57 (7%)
Query: 69 MTKREASLILGVSQSANRMKIKEAHKRIITLNHPDR-GGSPYLAAK---INEAKDLL 121
M KR+ ILGVS+ A+ +IK+A++++ HPDR G K INEA ++L
Sbjct: 1 MAKRDYYEILGVSKDASEEEIKKAYRKLAKKYHPDRNPGDKEAEEKFKEINEAYEVL 57
>gnl|CDD|184612 PRK14298, PRK14298, chaperone protein DnaJ; Provisional.
Length = 377
Score = 34.4 bits (79), Expect = 0.009
Identities = 16/47 (34%), Positives = 26/47 (55%)
Query: 70 TKREASLILGVSQSANRMKIKEAHKRIITLNHPDRGGSPYLAAKINE 116
T R+ ILG+S+ A+ IK+A++++ HPD+ P K E
Sbjct: 3 TTRDYYEILGLSKDASVEDIKKAYRKLAMKYHPDKNKEPDAEEKFKE 49
>gnl|CDD|237664 PRK14294, PRK14294, chaperone protein DnaJ; Provisional.
Length = 366
Score = 34.4 bits (79), Expect = 0.009
Identities = 14/36 (38%), Positives = 25/36 (69%)
Query: 69 MTKREASLILGVSQSANRMKIKEAHKRIITLNHPDR 104
M KR+ ILGV++ A+ +IK++++++ HPDR
Sbjct: 1 MVKRDYYEILGVTRDASEEEIKKSYRKLAMKYHPDR 36
>gnl|CDD|237657 PRK14281, PRK14281, chaperone protein DnaJ; Provisional.
Length = 397
Score = 34.0 bits (78), Expect = 0.011
Identities = 14/35 (40%), Positives = 26/35 (74%)
Query: 70 TKREASLILGVSQSANRMKIKEAHKRIITLNHPDR 104
KR+ +LGVS+SA++ +IK+A++++ HPD+
Sbjct: 1 MKRDYYEVLGVSRSADKDEIKKAYRKLALKYHPDK 35
>gnl|CDD|237655 PRK14279, PRK14279, chaperone protein DnaJ; Provisional.
Length = 392
Score = 33.6 bits (77), Expect = 0.016
Identities = 16/48 (33%), Positives = 26/48 (54%), Gaps = 4/48 (8%)
Query: 78 LGVSQSANRMKIKEAHKRIITLNHPDRGGSPYLAA----KINEAKDLL 121
LGVS A+ +IK+A++++ HPD A ++EA D+L
Sbjct: 15 LGVSSDASAEEIKKAYRKLARELHPDANPGDPAAEERFKAVSEAHDVL 62
>gnl|CDD|172773 PRK14285, PRK14285, chaperone protein DnaJ; Provisional.
Length = 365
Score = 33.4 bits (76), Expect = 0.017
Identities = 16/44 (36%), Positives = 27/44 (61%)
Query: 71 KREASLILGVSQSANRMKIKEAHKRIITLNHPDRGGSPYLAAKI 114
KR+ ILG+S+ A++ +IK+A+++I HPD+ A I
Sbjct: 2 KRDYYEILGLSKGASKDEIKKAYRKIAIKYHPDKNKGNKEAESI 45
>gnl|CDD|172774 PRK14286, PRK14286, chaperone protein DnaJ; Provisional.
Length = 372
Score = 33.0 bits (75), Expect = 0.022
Identities = 21/55 (38%), Positives = 32/55 (58%), Gaps = 1/55 (1%)
Query: 69 MTKREASLILGVSQSANRMKIKEAHKRIITLNHPDRG-GSPYLAAKINEAKDLLE 122
M++R ILGVS+SAN +IK A++++ HPD+ G+ K EA + E
Sbjct: 1 MSERSYYDILGVSKSANDEEIKSAYRKLAIKYHPDKNKGNKESEEKFKEATEAYE 55
>gnl|CDD|217661 pfam03656, Pam16, Pam16. The Pam16 protein is the fifth essential
subunit of the pre-sequence translocase-associated
protein import motor (PAM). In Saccharomyces cerevisiae,
Pam16 is required for preprotein translocation into the
matrix, but not for protein insertion into the inner
membrane. Pam16 has a degenerate J domain. J-domain
proteins play important regulatory roles as
co-chaperones, recruiting Hsp70 partners and
accelerating the ATP-hydrolysis step of the chaperone
cycle. Pam16's J-like domain strongly interacts with
Pam18's J domain, leading to a productive interaction of
Pam18 with mtHsp70 at the mitochondria import channel.
Pam18 stimulates the ATPase activity of mtHsp70.
Length = 127
Score = 32.2 bits (73), Expect = 0.024
Identities = 24/103 (23%), Positives = 46/103 (44%), Gaps = 4/103 (3%)
Query: 21 LAAVGYAGRYILKAAPMASARLNEALKALPKAESFANSKYYKGGFEPKMTKREASLILGV 80
+ G+ +A +A A A A +K GG ++ E+ IL V
Sbjct: 11 ITGTQVVGKAFARAYRQEAAAQRVAAGAGTNASRRGTAKSNYGG----ISLDESCQILNV 66
Query: 81 SQSANRMKIKEAHKRIITLNHPDRGGSPYLAAKINEAKDLLEQ 123
+ N ++ + ++ + +N +GGS YL +K+ AK+ L++
Sbjct: 67 EEDLNMEEVNKRYEHLFEVNDKSKGGSFYLQSKVYRAKERLDE 109
>gnl|CDD|184604 PRK14283, PRK14283, chaperone protein DnaJ; Provisional.
Length = 378
Score = 33.3 bits (76), Expect = 0.024
Identities = 14/48 (29%), Positives = 26/48 (54%)
Query: 69 MTKREASLILGVSQSANRMKIKEAHKRIITLNHPDRGGSPYLAAKINE 116
KR+ +LGV ++A++ +IK+A++++ HPD K E
Sbjct: 2 AEKRDYYEVLGVDRNADKKEIKKAYRKLARKYHPDVSEEEGAEEKFKE 49
>gnl|CDD|237654 PRK14278, PRK14278, chaperone protein DnaJ; Provisional.
Length = 378
Score = 33.1 bits (76), Expect = 0.025
Identities = 13/41 (31%), Positives = 22/41 (53%)
Query: 77 ILGVSQSANRMKIKEAHKRIITLNHPDRGGSPYLAAKINEA 117
+LGVS++A+ +IK A++++ HPD K E
Sbjct: 8 LLGVSRNASDAEIKRAYRKLARELHPDVNPDEEAQEKFKEI 48
>gnl|CDD|184599 PRK14277, PRK14277, chaperone protein DnaJ; Provisional.
Length = 386
Score = 32.9 bits (75), Expect = 0.029
Identities = 20/61 (32%), Positives = 32/61 (52%), Gaps = 4/61 (6%)
Query: 69 MTKREASLILGVSQSANRMKIKEAHKRIITLNHPDRG-GSPYLAAK---INEAKDLLEQS 124
K++ ILGV ++A +IK+A++R+ HPD G K INEA ++L
Sbjct: 2 AAKKDYYEILGVDRNATEEEIKKAYRRLAKKYHPDLNPGDKEAEQKFKEINEAYEILSDP 61
Query: 125 K 125
+
Sbjct: 62 Q 62
>gnl|CDD|237665 PRK14295, PRK14295, chaperone protein DnaJ; Provisional.
Length = 389
Score = 32.1 bits (73), Expect = 0.044
Identities = 20/78 (25%), Positives = 33/78 (42%), Gaps = 18/78 (23%)
Query: 52 AESFANSKYYKGGFEPKMTKREASLILGVSQSANRMKIKEAHKRIITLNHPD-RGGSPYL 110
+ + YYK +LGV + A +IK+A++++ HPD G
Sbjct: 3 TKDYIEKDYYK--------------VLGVPKDATEAEIKKAYRKLAREYHPDANKGDAKA 48
Query: 111 AAK---INEAKDLLEQSK 125
+ I+EA D+L K
Sbjct: 49 EERFKEISEAYDVLSDEK 66
>gnl|CDD|237653 PRK14276, PRK14276, chaperone protein DnaJ; Provisional.
Length = 380
Score = 32.0 bits (73), Expect = 0.053
Identities = 18/56 (32%), Positives = 29/56 (51%), Gaps = 3/56 (5%)
Query: 69 MTKREASLILGVSQSANRMKIKEAHKRIITLNHPDRGGSPYLAAK---INEAKDLL 121
M E LGVS+ A++ +IK+A++++ HPD P K + EA + L
Sbjct: 1 MNNTEYYDRLGVSKDASQDEIKKAYRKLSKKYHPDINKEPGAEEKYKEVQEAYETL 56
>gnl|CDD|222912 PHA02624, PHA02624, large T antigen; Provisional.
Length = 647
Score = 31.9 bits (73), Expect = 0.061
Identities = 12/49 (24%), Positives = 23/49 (46%)
Query: 76 LILGVSQSANRMKIKEAHKRIITLNHPDRGGSPYLAAKINEAKDLLEQS 124
L L ++ N +++A+ R HPD+GG ++N L++
Sbjct: 17 LGLPMAAWGNLPLMRKAYLRKCKEYHPDKGGDEEKMKRLNSLYKKLQEG 65
>gnl|CDD|222986 PHA03102, PHA03102, Small T antigen; Reviewed.
Length = 153
Score = 30.4 bits (69), Expect = 0.14
Identities = 13/50 (26%), Positives = 21/50 (42%)
Query: 76 LILGVSQSANRMKIKEAHKRIITLNHPDRGGSPYLAAKINEAKDLLEQSK 125
L L S N +++A+ R HPD+GG ++N +S
Sbjct: 11 LGLPRSAWGNLPLMRKAYLRKCLEFHPDKGGDEEKMKELNTLYKKFRESV 60
>gnl|CDD|236512 PRK09430, djlA, Dna-J like membrane chaperone protein; Provisional.
Length = 267
Score = 30.6 bits (70), Expect = 0.15
Identities = 14/37 (37%), Positives = 26/37 (70%), Gaps = 5/37 (13%)
Query: 77 ILGVSQSANRMKIKEAHKRIITLNHPDRGGSPYLAAK 113
+LGVS+S + +IK A++++++ +HPD+ L AK
Sbjct: 205 VLGVSESDDDQEIKRAYRKLMSEHHPDK-----LVAK 236
>gnl|CDD|172788 PRK14300, PRK14300, chaperone protein DnaJ; Provisional.
Length = 372
Score = 30.8 bits (69), Expect = 0.16
Identities = 17/52 (32%), Positives = 30/52 (57%), Gaps = 3/52 (5%)
Query: 77 ILGVSQSANRMKIKEAHKRIITLNHPDRGGSPYLAAK---INEAKDLLEQSK 125
ILGVS++A++ +K+A+ ++ HPD + K IN A D+L+ +
Sbjct: 8 ILGVSKTASQADLKKAYLKLAKQYHPDTTDAKDAEKKFKEINAAYDVLKDEQ 59
>gnl|CDD|237663 PRK14293, PRK14293, chaperone protein DnaJ; Provisional.
Length = 374
Score = 30.3 bits (69), Expect = 0.18
Identities = 12/27 (44%), Positives = 20/27 (74%)
Query: 77 ILGVSQSANRMKIKEAHKRIITLNHPD 103
ILGVS+ A++ ++K A++R+ HPD
Sbjct: 8 ILGVSRDADKDELKRAYRRLARKYHPD 34
>gnl|CDD|184611 PRK14297, PRK14297, chaperone protein DnaJ; Provisional.
Length = 380
Score = 29.8 bits (67), Expect = 0.35
Identities = 16/57 (28%), Positives = 30/57 (52%), Gaps = 4/57 (7%)
Query: 69 MTKREASLILGVSQSANRMKIKEAHKRIITLNHPDRGGSPYLA----AKINEAKDLL 121
M ++ +LG+ + A+ +IK+A +++ HPD+ A +INEA +L
Sbjct: 1 MASKDYYEVLGLEKGASDDEIKKAFRKLAIKYHPDKNKGNKEAEEKFKEINEAYQVL 57
>gnl|CDD|237660 PRK14289, PRK14289, chaperone protein DnaJ; Provisional.
Length = 386
Score = 29.4 bits (66), Expect = 0.39
Identities = 13/36 (36%), Positives = 23/36 (63%)
Query: 69 MTKREASLILGVSQSANRMKIKEAHKRIITLNHPDR 104
KR+ +LGVS++A +IK+A+++ HPD+
Sbjct: 2 AEKRDYYEVLGVSKTATVDEIKKAYRKKAIQYHPDK 37
>gnl|CDD|237658 PRK14284, PRK14284, chaperone protein DnaJ; Provisional.
Length = 391
Score = 29.4 bits (66), Expect = 0.41
Identities = 17/53 (32%), Positives = 33/53 (62%), Gaps = 4/53 (7%)
Query: 77 ILGVSQSANRMKIKEAHKRIITLNHPDRGGSPYLAAK----INEAKDLLEQSK 125
ILGVS++A+ +IK+A++++ HPD+ A K ++EA ++L ++
Sbjct: 6 ILGVSKTASPEEIKKAYRKLAVKYHPDKNPGDAEAEKRFKEVSEAYEVLSDAQ 58
>gnl|CDD|233885 TIGR02479, FliA_WhiG, RNA polymerase sigma factor, FliA/WhiG
family. Most members of this family are the flagellar
operon sigma factor FliA, controlling transcription of
bacterial flagellar genes by RNA polymerase. An
exception is the sigma factor WhiG in the genus
Streptomyces, involved in the production of sporulating
aerial mycelium.
Length = 224
Score = 28.8 bits (65), Expect = 0.72
Identities = 13/57 (22%), Positives = 28/57 (49%), Gaps = 8/57 (14%)
Query: 41 RLNEALKALPKAESFANSKYYKGGFEPKMTKREASLILGVSQSANRMKIKEAHKRII 97
L EA+++L + E S YY + +E +LG+++S ++ + H + +
Sbjct: 168 ALAEAIESLSEREQLVLSLYYYEE----LNLKEIGEVLGLTES----RVSQIHSQAL 216
>gnl|CDD|220645 pfam10239, DUF2465, Protein of unknown function (DUF2465). FAM98A
and B proteins are found from worms to humans but their
function is unknown. This entry is of a family of
proteins that is rich in glycines.
Length = 318
Score = 28.6 bits (64), Expect = 0.90
Identities = 12/43 (27%), Positives = 19/43 (44%)
Query: 71 KREASLILGVSQSANRMKIKEAHKRIITLNHPDRGGSPYLAAK 113
+ + + I S + R K A +++ PDRGG P A
Sbjct: 261 REDLARIEKTSSGSIREKTACAINKVLMGRVPDRGGRPNEIAP 303
>gnl|CDD|227694 COG5407, SEC63, Preprotein translocase subunit Sec63 [Intracellular
trafficking and secretion].
Length = 610
Score = 28.4 bits (63), Expect = 1.0
Identities = 12/47 (25%), Positives = 22/47 (46%), Gaps = 5/47 (10%)
Query: 77 ILGVSQSANRMKIKEAHKRIITLNHPDRGGSPYLAAKINEAKDLLEQ 123
ILG+ Q + IK+ ++ + HPD+ +NE + E+
Sbjct: 103 ILGIDQDTSERDIKKRYRMLSMKFHPDK-----APPMVNELRSEYEE 144
>gnl|CDD|217056 pfam02471, OspE, Borrelia outer surface protein E. This is a
family of outer surface proteins (Osp) from the Borrelia
spirochete. The family includes OspE, and OspEF-related
proteins (Erp). These proteins are coded for on
different circular plasmids in the Borrelia genome.
Length = 108
Score = 27.1 bits (60), Expect = 1.4
Identities = 25/86 (29%), Positives = 39/86 (45%), Gaps = 19/86 (22%)
Query: 15 ILTGLGLAAVGYAGRYILKAAPMASARLNEALKALPKAESFANSKYYKGGFEPKMTKREA 74
I TGL +G+ + + + +N +KA+ + SF S YY G+ K E
Sbjct: 32 IETGLN-VGIGHTATFF----SLEESEVNNFVKAMTEGGSFKTSLYY--GY-----KEEQ 79
Query: 75 SLILGVSQSANRMKIKEAHKRIITLN 100
S +AN +K KE +I T+N
Sbjct: 80 S-------NANGIKNKEIITKIETIN 98
>gnl|CDD|225124 COG2214, CbpA, DnaJ-class molecular chaperone [Posttranslational
modification, protein turnover, chaperones].
Length = 237
Score = 27.9 bits (61), Expect = 1.5
Identities = 20/50 (40%), Positives = 32/50 (64%), Gaps = 5/50 (10%)
Query: 77 ILGVSQSANRMKIKEAHKRIITLNHPDR-GGSPYLAA----KINEAKDLL 121
ILGV +A+ +IK+A++++ HPDR G P +A +INEA ++L
Sbjct: 11 ILGVPPNASLEEIKKAYRKLALKYHPDRNPGDPKVAEEKFKEINEAYEIL 60
>gnl|CDD|215800 pfam00221, Lyase_aromatic, Aromatic amino acid lyase. This family
includes proteins with phenylalanine ammonia-lyase,
EC:4.3.1.24, histidine ammonia-lyase, EC:4.3.1.3, and
tyrosine aminomutase, EC:5.4.3.6, activities.
Length = 477
Score = 27.8 bits (63), Expect = 1.7
Identities = 12/41 (29%), Positives = 19/41 (46%), Gaps = 1/41 (2%)
Query: 12 STAILTGLGLAAVGYAGRYILKAAPMASARLNEALKALPKA 52
T ++T L A+ A +L A + A EAL+ P+
Sbjct: 194 GTQVMTALAALALFDA-ERLLDLADVIGALSLEALRGSPEP 233
>gnl|CDD|197300 cd09842, PLDc_vPLD1_1, Catalytic domain, repeat 1, of vertebrate
phospholipase D1. Catalytic domain, repeat 1, of
vertebrate phospholipase D1 (PLD1). PLDs play a pivotal
role in transmembrane signaling and cellular regulation.
They hydrolyze the terminal phosphodiester bond of
phospholipids resulting in the formation of phosphatidic
acid and alcohols. Phosphatidic acid is an essential
compound involved in signal transduction. PLDs also
catalyze the transphosphatidylation of phospholipids to
acceptor alcohols, by which various phospholipids can be
synthesized. Vertebrate PLD1 is a membrane associated
phosphatidylinositol 4,5-bisphosphate (PIP2)-dependent
enzyme that selectively hydrolyzes phosphatidylcholine
(PC). Protein cofactors and calcium might be required
for its activation. Most vertebrate PLDs have adjacent
Phox (PX) and the Pleckstrin homology (PH) domains at
their N-terminus, which have been shown to mediate
membrane targeting of the protein and are closely linked
to polyphosphoinositide signaling. Like other members of
the PLD superfamily, the monomer of vertebrate PLDs
consists of two catalytic domains, each of which
contains one copy of the conserved HKD motif
(H-x-K-x(4)-D, where x represents any amino acid
residue). Two HKD motifs from two domains form a single
active site. These PLDs utilize a common two-step
ping-pong catalytic mechanism involving an
enzyme-substrate intermediate to cleave phosphodiester
bonds. The two histidine residues from the two HKD
motifs play key roles in the catalysis. Upon substrate
binding, a histidine residue from one HKD motif could
function as the nucleophile, attacking the
phosphodiester bond to create a covalent
phosphohistidine intermediate, while the other histidine
residue from the second HKD motif could serve as a
general acid, stabilizing the leaving group.
Length = 151
Score = 27.3 bits (60), Expect = 1.7
Identities = 17/57 (29%), Positives = 28/57 (49%), Gaps = 2/57 (3%)
Query: 69 MTKREASLILGVSQSANRMKIKEAHKRIITLNHPDR-GGSPYLAAKINEAKDLLEQS 124
M +E L LG++ ++ + H I + HPD S YL A +E +++QS
Sbjct: 67 MLYKEVELALGINSEYSKRTLMRLHPNIKVMRHPDHVSSSVYLWAH-HEKIVVIDQS 122
>gnl|CDD|172776 PRK14288, PRK14288, chaperone protein DnaJ; Provisional.
Length = 369
Score = 27.3 bits (60), Expect = 2.3
Identities = 17/53 (32%), Positives = 28/53 (52%), Gaps = 4/53 (7%)
Query: 77 ILGVSQSANRMKIKEAHKRIITLNHPDRGGSPYLAAK----INEAKDLLEQSK 125
IL V + +N+ IK++++++ HPDR A + INEA +L K
Sbjct: 8 ILEVEKHSNQETIKKSYRKLALKYHPDRNAGDKEAEEKFKLINEAYGVLSDEK 60
>gnl|CDD|234065 TIGR02937, sigma70-ECF, RNA polymerase sigma factor, sigma-70
family. This model encompasses all varieties of the
sigma-70 type sigma factors including the ECF subfamily.
A number of sigma factors have names with a different
number than 70 (i.e. sigma-38), but in fact, all except
for the Sigma-54 family (TIGR02395) are included within
this family. Several PFAM models hit segments of these
sequences including Sigma-70 region 2 (pfam04542) and
Sigma-70, region 4 (pfam04545), but not always above
their respective trusted cutoffs.
Length = 158
Score = 26.9 bits (60), Expect = 2.3
Identities = 17/58 (29%), Positives = 31/58 (53%), Gaps = 6/58 (10%)
Query: 40 ARLNEALKALPKAESFA-NSKYYKGGFEPKMTKREASLILGVSQSANRMKIKEAHKRI 96
L EAL+ LP+ E +Y +G ++ +E + ILG+S + ++K A K++
Sbjct: 102 EALREALEKLPEREREVLVLRYLEG-----LSYKEIAEILGISVGTVKRRLKRARKKL 154
>gnl|CDD|100119 cd06171, Sigma70_r4, Sigma70, region (SR) 4 refers to the most
C-terminal of four conserved domains found in
Escherichia coli (Ec) sigma70, the main housekeeping
sigma, and related sigma-factors (SFs). A SF is a
dissociable subunit of RNA polymerase, it directs
bacterial or plastid core RNA polymerase to specific
promoter elements located upstream of transcription
initiation points. The SR4 of Ec sigma70 and other
essential primary SFs contact promoter sequences
located 35 base-pairs upstream of the initiation point,
recognizing a 6-base-pair -35 consensus TTGACA.
Sigma70 related SFs also include SFs which are
dispensable for bacterial cell growth for example Ec
sigmaS, SFs which activate regulons in response to a
specific signal for example heat-shock Ec sigmaH, and a
group of SFs which includes the extracytoplasmic
function (ECF) SFs and is typified by Ec sigmaE which
contains SR2 and -4 only. ECF SFs direct the
transcription of genes that regulate various responses
including periplasmic stress and pathogenesis. Ec
sigmaE SR4 also contacts the -35 element, but
recognizes a different consensus (a 7-base-pair
GGAACTT). Plant SFs recognize sigma70 type promoters
and direct transcription of the major plastid RNA
polymerase, plastid-encoded RNA polymerase (PEP).
Length = 55
Score = 25.1 bits (56), Expect = 3.1
Identities = 18/57 (31%), Positives = 29/57 (50%), Gaps = 4/57 (7%)
Query: 40 ARLNEALKALPKAESFANSKYYKGGFEPKMTKREASLILGVSQSANRMKIKEAHKRI 96
RL EAL LP+ E + G ++ E + ILG+S+S R ++ A K++
Sbjct: 2 ERLEEALDKLPEREREVILLRFGEG----LSYEEIAEILGISRSTVRQRLHRALKKL 54
>gnl|CDD|235901 PRK06986, fliA, flagellar biosynthesis sigma factor; Validated.
Length = 236
Score = 26.7 bits (60), Expect = 3.5
Identities = 17/57 (29%), Positives = 31/57 (54%), Gaps = 8/57 (14%)
Query: 41 RLNEALKALPKAESFANSKYYKGGFEPKMTKREASLILGVSQSANRMKIKEAHKRII 97
L EA+++LP+ E S YY + ++ +E +LGVS+S ++ + H + I
Sbjct: 177 ALVEAIESLPEREQLVLSLYY----QEELNLKEIGAVLGVSES----RVSQIHSQAI 225
>gnl|CDD|200431 TIGR04180, EDH_00030, NAD dependent epimerase/dehydratase,
LLPSF_EDH_00030 family. This clade within the NAD
dependent epimerase/dehydratase superfamily (pfam01370)
is characterized by inclusion of its members within a
cassette of seven distinctive enzymes. These include
four genes homologous to the elements of the neuraminic
(sialic) acid biosynthesis cluster (NeuABCD), an
aminotransferase and a nucleotidyltransferase in
addition to the epimerase/dehydratase. Together it is
very likely that these enzymes direct the biosynthesis
of a nine-carbon sugar analagous to CMP-neuraminic acid.
These seven genes form the core of the cassette,
although they are often accompanied by additional genes
that may further modify the product sugar. Although this
cassette is widely distributed in bacteria, the family
nomenclature arises from the instance in Leptospira
interrogans serovar Lai, str. 56601, where it appears as
the 30th gene in the 91-gene lipopolysaccharide
biosynthesis cluster.
Length = 297
Score = 26.5 bits (59), Expect = 4.3
Identities = 10/18 (55%), Positives = 12/18 (66%)
Query: 97 ITLNHPDRGGSPYLAAKI 114
I HP +G SPY A+KI
Sbjct: 133 IDEKHPLQGQSPYSASKI 150
>gnl|CDD|182347 PRK10266, PRK10266, curved DNA-binding protein CbpA; Provisional.
Length = 306
Score = 26.3 bits (58), Expect = 5.2
Identities = 14/46 (30%), Positives = 22/46 (47%)
Query: 77 ILGVSQSANRMKIKEAHKRIITLNHPDRGGSPYLAAKINEAKDLLE 122
I+GV + + IK A++R+ HPD P A+ E + E
Sbjct: 9 IMGVKPTDDLKTIKTAYRRLARKYHPDVSKEPDAEARFKEVAEAWE 54
>gnl|CDD|148810 pfam07412, Geminin, Geminin. This family contains the eukaryotic
protein geminin (approximately 200 residues long).
Geminin inhibits DNA replication by preventing the
incorporation of MCM complex into prereplication
complex, and is degraded during the mitotic phase of the
cell cycle. It has been proposed that geminin inhibits
DNA replication during S, G2, and M phases and that
geminin destruction at the metaphase-anaphase transition
permits replication in the succeeding cell cycle.
Length = 200
Score = 26.0 bits (57), Expect = 5.4
Identities = 17/54 (31%), Positives = 21/54 (38%), Gaps = 3/54 (5%)
Query: 41 RLNEALKALPKAESFAN---SKYYKGGFEPKMTKREASLILGVSQSANRMKIKE 91
R NE K L K + + S G E E GV+Q A + IKE
Sbjct: 49 RENELGKGLSKRKLWNAQLTSGTSSVGVEVDPESTENKDPGGVTQEAYDLMIKE 102
>gnl|CDD|213713 TIGR02482, PFKA_ATP, 6-phosphofructokinase. 6-phosphofructokinase
(EC 2.7.1.11) catalyzes the addition of phosphate from
ATP to fructose 6-phosphate to give fructose
1,6-bisphosphate. This represents a key control step in
glycolysis. This model hits bacterial ATP-dependent
6-phosphofructokinases which lack a beta-hairpin loop
present in TIGR02483 family members. TIGR02483 contains
members that are ATP-dependent as well as members that
are pyrophosphate-dependent. TIGR02477 represents the
pyrophosphate-dependent phosphofructokinase,
diphosphate--fructose-6-phosphate 1-phosphotransferase
(EC 2.7.1.90) [Energy metabolism,
Glycolysis/gluconeogenesis].
Length = 301
Score = 25.8 bits (57), Expect = 7.4
Identities = 17/47 (36%), Positives = 25/47 (53%), Gaps = 9/47 (19%)
Query: 88 KIKEAHK---RIITLNHPDRGGSP-----YLAAKIN-EAKDLLEQSK 125
KI+E R+ L H RGGSP LA+++ +A +LL + K
Sbjct: 234 KIEEKTGIETRVTVLGHTQRGGSPSAFDRVLASRLGAKAVELLLEGK 280
>gnl|CDD|221011 pfam11167, DUF2953, Protein of unknown function (DUF2953). This
family of proteins has no known function.
Length = 51
Score = 24.0 bits (53), Expect = 8.1
Identities = 8/17 (47%), Positives = 8/17 (47%)
Query: 11 ASTAILTGLGLAAVGYA 27
A T IL GL A G
Sbjct: 9 ADTGILYGLLWAIKGLI 25
>gnl|CDD|215047 PLN00070, PLN00070, aconitate hydratase.
Length = 936
Score = 25.9 bits (57), Expect = 8.4
Identities = 21/62 (33%), Positives = 25/62 (40%), Gaps = 1/62 (1%)
Query: 1 MSSFSSSSPCASTAILTGLGLAAVGYAGRYILKAAPMASA-RLNEALKALPKAESFANSK 59
+S S SS +S L AA R+ K A MAS L +LPK K
Sbjct: 3 AASSSLSSSSSSPFSLRAQIRAASPVIERFQRKFASMASENPFKGILTSLPKPGGGEFGK 62
Query: 60 YY 61
YY
Sbjct: 63 YY 64
>gnl|CDD|238793 cd01535, 4RHOD_Repeat_4, Member of the Rhodanese Homology Domain
superfamily, repeat 4. This CD includes putative
rhodanese-related sulfurtransferases which contain 4
copies of the Rhodanese Homology Domain. This CD aligns
the 4th repeat which, in general, contains the putative
catalytic Cys residue.
Length = 145
Score = 25.2 bits (55), Expect = 8.8
Identities = 13/32 (40%), Positives = 19/32 (59%)
Query: 22 AAVGYAGRYILKAAPMASARLNEALKALPKAE 53
A+ Y R+I A + A+L +AL+ LP AE
Sbjct: 19 ASANYVKRHIPGAWWVLRAQLAQALEKLPAAE 50
>gnl|CDD|172778 PRK14290, PRK14290, chaperone protein DnaJ; Provisional.
Length = 365
Score = 25.7 bits (56), Expect = 8.8
Identities = 11/27 (40%), Positives = 18/27 (66%)
Query: 77 ILGVSQSANRMKIKEAHKRIITLNHPD 103
ILGV ++A++ IK+A + + HPD
Sbjct: 8 ILGVDRNASQEDIKKAFRELAKKWHPD 34
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.312 0.126 0.343
Gapped
Lambda K H
0.267 0.0769 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 6,036,891
Number of extensions: 510504
Number of successful extensions: 563
Number of sequences better than 10.0: 1
Number of HSP's gapped: 563
Number of HSP's successfully gapped: 78
Length of query: 125
Length of database: 10,937,602
Length adjustment: 85
Effective length of query: 40
Effective length of database: 7,167,512
Effective search space: 286700480
Effective search space used: 286700480
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 53 (24.1 bits)