RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy6737
(130 letters)
>gnl|CDD|240227 PTZ00009, PTZ00009, heat shock 70 kDa protein; Provisional.
Length = 653
Score = 186 bits (474), Expect = 6e-57
Identities = 75/134 (55%), Positives = 101/134 (75%), Gaps = 4/134 (2%)
Query: 1 MVNDAEKYKAEDEKQKAVISAKNSLESYCFNMKSTVEDEKLKDKISDAERTQILDKCNDV 60
MVN+AEKYKAEDE + + AKN LE+YC++MK+T++DEK+K K+SD+++ I ++
Sbjct: 520 MVNEAEKYKAEDEANRERVEAKNGLENYCYSMKNTLQDEKVKGKLSDSDKATIEKAIDEA 579
Query: 61 IKWLDANQLAEKEEFEHKQKELEAICNPIITKLYQGSG-GAPGGFPGAPGAGAPPSGAP- 118
++WL+ NQLAEKEEFEHKQKE+E++CNPI+TK+YQ +G G PGG PG G P P
Sbjct: 580 LEWLEKNQLAEKEEFEHKQKEVESVCNPIMTKMYQAAGGGMPGGMPGGMPGGMPGGAGPA 639
Query: 119 --GAGPGPTIEEVD 130
GA GPT+EEVD
Sbjct: 640 GAGASSGPTVEEVD 653
>gnl|CDD|215656 pfam00012, HSP70, Hsp70 protein. Hsp70 chaperones help to fold
many proteins. Hsp70 assisted folding involves repeated
cycles of substrate binding and release. Hsp70 activity
is ATP dependent. Hsp70 proteins are made up of two
regions: the amino terminus is the ATPase domain and the
carboxyl terminus is the substrate binding region.
Length = 598
Score = 93.5 bits (233), Expect = 3e-23
Identities = 36/96 (37%), Positives = 60/96 (62%), Gaps = 7/96 (7%)
Query: 1 MVNDAEKYKAEDEKQKAVISAKNSLESYCFNMKSTVEDEKLKDKISDAERTQILDKCNDV 60
MV DAE+Y AED+K+K I AKN E Y ++++ ++++E DK+ +A++ K +
Sbjct: 509 MVKDAEEYAAEDKKRKERIEAKNEAEEYVYSLEKSLKEE--GDKLPEADKK----KVEEA 562
Query: 61 IKWLDAN-QLAEKEEFEHKQKELEAICNPIITKLYQ 95
I+WL + +KEE E K +EL+ + PI ++YQ
Sbjct: 563 IEWLKEELEGEDKEEIEAKTEELQKVVQPIGERMYQ 598
>gnl|CDD|234715 PRK00290, dnaK, molecular chaperone DnaK; Provisional.
Length = 627
Score = 65.9 bits (162), Expect = 1e-13
Identities = 29/109 (26%), Positives = 52/109 (47%), Gaps = 5/109 (4%)
Query: 1 MVNDAEKYKAEDEKQKAVISAKNSLESYCFNMKSTVEDEKLKDKISDAERTQILDKCNDV 60
MV DAE ED+K+K ++ A+N +S + + T+++ L DK+ E+ +I ++
Sbjct: 508 MVKDAEANAEEDKKRKELVEARNQADSLIYQTEKTLKE--LGDKVPADEKEKIEAAIKEL 565
Query: 61 IKWLDANQLAEKEEFEHKQKELEAICNPIITKLYQGSGGAPGGFPGAPG 109
+ L +KE + K +EL + +YQ + A G A
Sbjct: 566 KEALKGE---DKEAIKAKTEELTQASQKLGEAMYQQAQAAQGAAGAAAK 611
>gnl|CDD|223520 COG0443, DnaK, Molecular chaperone [Posttranslational modification,
protein turnover, chaperones].
Length = 579
Score = 62.4 bits (152), Expect = 2e-12
Identities = 28/95 (29%), Positives = 53/95 (55%), Gaps = 7/95 (7%)
Query: 1 MVNDAEKYKAEDEKQKAVISAKNSLESYCFNMKSTVEDEKLKDKISDAERTQILDKCNDV 60
MV DAE A D+K + ++ A+N ES ++++ +++ K+S+ E+ +I + D+
Sbjct: 491 MVEDAEANAALDKKFRELVEARNEAESLIYSLEKALKEI---VKVSEEEKEKIEEAITDL 547
Query: 61 IKWLDANQLAEKEEFEHKQKELEAICNPIITKLYQ 95
+ L+ EKEE + K +EL+ + + K YQ
Sbjct: 548 EEALE----GEKEEIKAKIEELQEVTQKLAEKKYQ 578
>gnl|CDD|233830 TIGR02350, prok_dnaK, chaperone protein DnaK. Members of this
family are the chaperone DnaK, of the DnaK-DnaJ-GrpE
chaperone system. All members of the seed alignment were
taken from completely sequenced bacterial or archaeal
genomes and (except for Mycoplasma sequence) found
clustered with other genes of this systems. This model
excludes DnaK homologs that are not DnaK itself, such as
the heat shock cognate protein HscA (TIGR01991).
However, it is not designed to distinguish among DnaK
paralogs in eukaryotes. Note that a number of dnaK genes
have shadow ORFs in the same reverse (relative to dnaK)
reading frame, a few of which have been assigned
glutamate dehydrogenase activity. The significance of
this observation is unclear; lengths of such shadow ORFs
are highly variable as if the presumptive protein
product is not conserved [Protein fate, Protein folding
and stabilization].
Length = 595
Score = 57.7 bits (140), Expect = 8e-11
Identities = 25/95 (26%), Positives = 48/95 (50%), Gaps = 5/95 (5%)
Query: 1 MVNDAEKYKAEDEKQKAVISAKNSLESYCFNMKSTVEDEKLKDKISDAERTQILDKCNDV 60
MV +AE ED+K+K I A+N+ +S + + T+++ DK+ E+ +I ++
Sbjct: 506 MVKEAEANAEEDKKRKEEIEARNNADSLAYQAEKTLKE--AGDKLPAEEKEKIEKAVAEL 563
Query: 61 IKWLDANQLAEKEEFEHKQKELEAICNPIITKLYQ 95
+ L + EE + K +EL+ + +YQ
Sbjct: 564 KEALKGE---DVEEIKAKTEELQQALQKLAEAMYQ 595
>gnl|CDD|215618 PLN03184, PLN03184, chloroplast Hsp70; Provisional.
Length = 673
Score = 56.8 bits (137), Expect = 2e-10
Identities = 26/128 (20%), Positives = 54/128 (42%), Gaps = 7/128 (5%)
Query: 1 MVNDAEKYKAEDEKQKAVISAKNSLESYCFNMKSTVEDEKLKDKISDAERTQILDKCNDV 60
MV +AEK+ ED++++ + KN +S + + +++ L DK+ + ++ K ++
Sbjct: 547 MVQEAEKFAKEDKEKRDAVDTKNQADSVVYQTEKQLKE--LGDKVPADVKEKVEAKLKEL 604
Query: 61 IKWLDANQLAE-KEEFEHKQKELEAICNPIITKLYQGSGGAPGGFPGAPGAGAPPSGAPG 119
+ + + K+ +E+ I LY G G AG+ S + G
Sbjct: 605 KDAIASGSTQKMKDAMAALNQEVMQIGQ----SLYNQPGAGGAGPAPGGEAGSSSSSSSG 660
Query: 120 AGPGPTIE 127
I+
Sbjct: 661 GDGDDVID 668
>gnl|CDD|240403 PTZ00400, PTZ00400, DnaK-type molecular chaperone; Provisional.
Length = 663
Score = 56.4 bits (136), Expect = 3e-10
Identities = 30/98 (30%), Positives = 55/98 (56%), Gaps = 5/98 (5%)
Query: 1 MVNDAEKYKAEDEKQKAVISAKNSLESYCFNMKSTVEDEKLKDKISDAERTQILDKCNDV 60
MV +AE+YK +DEK+K ++ AKN E+ ++++ + D LKDKISDA++ ++ K +
Sbjct: 549 MVKEAEEYKEQDEKKKELVDAKNEAETLIYSVEKQLSD--LKDKISDADKDELKQKITKL 606
Query: 61 IKWLDANQLAEKEEFEHKQKELEAICNPIITKLYQGSG 98
L + + + + K K+L+ I + Y+
Sbjct: 607 RSTLSSEDV---DSIKDKTKQLQEASWKISQQAYKQGN 641
>gnl|CDD|214360 CHL00094, dnaK, heat shock protein 70.
Length = 621
Score = 47.0 bits (112), Expect = 4e-07
Identities = 31/98 (31%), Positives = 53/98 (54%), Gaps = 7/98 (7%)
Query: 1 MVNDAEKYKAEDEKQKAVISAKNSLESYCFNMKSTVEDEKLKDKISDAERTQILDKCNDV 60
MV +AEK AED++++ I KN ES C+ + +++ LKDKIS+ ++ +I ++
Sbjct: 510 MVKEAEKNAAEDKEKREKIDLKNQAESLCYQAEKQLKE--LKDKISEEKKEKI----ENL 563
Query: 61 IKWL-DANQLAEKEEFEHKQKELEAICNPIITKLYQGS 97
IK L A Q E + +EL+ I ++Y +
Sbjct: 564 IKKLRQALQNDNYESIKSLLEELQKALMEIGKEVYSST 601
>gnl|CDD|184039 PRK13411, PRK13411, molecular chaperone DnaK; Provisional.
Length = 653
Score = 42.8 bits (101), Expect = 1e-05
Identities = 24/103 (23%), Positives = 48/103 (46%), Gaps = 3/103 (2%)
Query: 1 MVNDAEKYKAEDEKQKAVISAKNSLESYCFNMKSTVEDEKLKDKISDAERTQILDKCNDV 60
M +AEKY ED ++K +I KN +S ++ +ST+++ + IS+ + + K
Sbjct: 510 MRQEAEKYAEEDRRRKQLIELKNQADSLLYSYESTLKEN--GELISEELKQRAEQKVE-Q 566
Query: 61 IKWLDANQLAEKEEFEHKQKELEAICNPIITKLYQGSGGAPGG 103
++ + EE + + +E + I ++YQ G
Sbjct: 567 LEAALTDPNISLEELKQQLEEFQQALLAIGAEVYQQGGSQTTD 609
>gnl|CDD|237177 PRK12704, PRK12704, phosphodiesterase; Provisional.
Length = 520
Score = 34.8 bits (81), Expect = 0.008
Identities = 22/112 (19%), Positives = 56/112 (50%), Gaps = 19/112 (16%)
Query: 1 MVNDAEKYKAEDEKQKAVISAKNSLESYCFNMKSTVEDEKL--KDKISDAE--------- 49
++ +A+K +AE K++A++ AK + +++ E E ++++ E
Sbjct: 43 ILEEAKK-EAEAIKKEALLEAKEEI----HKLRNEFEKELRERRNELQKLEKRLLQKEEN 97
Query: 50 ---RTQILDKCNDVIKWLDANQLAEKEEFEHKQKELEAICNPIITKLYQGSG 98
+ ++L+K + ++ + +++E E K++ELE + + +L + SG
Sbjct: 98 LDRKLELLEKREEELEKKEKELEQKQQELEKKEEELEELIEEQLQELERISG 149
>gnl|CDD|221598 pfam12484, PE_PPE_C, Polymorphic PE/PPE proteins C terminal. This
domain family is found in bacteria, and is approximately
90 amino acids in length. The family is found in
association with pfam00823. There is a conserved SVP
sequence motif. There is a single completely conserved
residue W that may be functionally important. The
proteins in this family are PE/PPE proteins implicated
in immunostimulation and virulence.
Length = 81
Score = 30.4 bits (69), Expect = 0.063
Identities = 12/32 (37%), Positives = 15/32 (46%)
Query: 95 QGSGGAPGGFPGAPGAGAPPSGAPGAGPGPTI 126
+G G PGA AG +G P G PT+
Sbjct: 45 AAAGAVLPGMPGAAAAGRGSAGFPRYGFRPTV 76
Score = 24.6 bits (54), Expect = 9.4
Identities = 9/24 (37%), Positives = 10/24 (41%)
Query: 100 APGGFPGAPGAGAPPSGAPGAGPG 123
A PGA A A + A PG
Sbjct: 30 AAAALPGAGVAAAAEAAAGAVLPG 53
>gnl|CDD|225043 COG2132, SufI, Putative multicopper oxidases [Secondary metabolites
biosynthesis, transport, and catabolism].
Length = 451
Score = 32.1 bits (73), Expect = 0.067
Identities = 13/28 (46%), Positives = 13/28 (46%)
Query: 100 APGGFPGAPGAGAPPSGAPGAGPGPTIE 127
APG GA G GA PGPTI
Sbjct: 40 QRAQLAFAPGTGATVWGYNGALPGPTIR 67
>gnl|CDD|216868 pfam02084, Bindin, Bindin.
Length = 239
Score = 31.0 bits (70), Expect = 0.11
Identities = 13/31 (41%), Positives = 13/31 (41%)
Query: 94 YQGSGGAPGGFPGAPGAGAPPSGAPGAGPGP 124
QG GG GG G G P G G G G
Sbjct: 33 NQGMGGPVGGGGGPGAGGGAPGGPVGGGGGG 63
Score = 29.1 bits (65), Expect = 0.62
Identities = 9/31 (29%), Positives = 9/31 (29%)
Query: 94 YQGSGGAPGGFPGAPGAGAPPSGAPGAGPGP 124
Y G G G P G G G G
Sbjct: 20 YPAPGQPAQQGYANQGMGGPVGGGGGPGAGG 50
Score = 26.8 bits (59), Expect = 3.0
Identities = 12/30 (40%), Positives = 12/30 (40%)
Query: 96 GSGGAPGGFPGAPGAGAPPSGAPGAGPGPT 125
G GG PG GAPG G GP
Sbjct: 41 GGGGGPGAGGGAPGGPVGGGGGGSGGPPGG 70
Score = 26.0 bits (57), Expect = 5.7
Identities = 11/30 (36%), Positives = 11/30 (36%)
Query: 95 QGSGGAPGGFPGAPGAGAPPSGAPGAGPGP 124
G A G G G G P GA GP
Sbjct: 27 AQQGYANQGMGGPVGGGGGPGAGGGAPGGP 56
Score = 25.6 bits (56), Expect = 8.6
Identities = 15/37 (40%), Positives = 15/37 (40%), Gaps = 2/37 (5%)
Query: 96 GSGGAPGGFPGAP--GAGAPPSGAPGAGPGPTIEEVD 130
G GA GG PG P G G G PG G E
Sbjct: 44 GGPGAGGGAPGGPVGGGGGGSGGPPGGGEVAGEAEDA 80
>gnl|CDD|236382 PRK09111, PRK09111, DNA polymerase III subunits gamma and tau;
Validated.
Length = 598
Score = 30.6 bits (70), Expect = 0.17
Identities = 12/33 (36%), Positives = 14/33 (42%)
Query: 92 KLYQGSGGAPGGFPGAPGAGAPPSGAPGAGPGP 124
+ Q +PGG G P G GAP A P
Sbjct: 385 RRLQEGPPSPGGGGGGPPGGGGAPGAPAAAAAP 417
Score = 29.5 bits (67), Expect = 0.51
Identities = 8/30 (26%), Positives = 9/30 (30%)
Query: 95 QGSGGAPGGFPGAPGAGAPPSGAPGAGPGP 124
G GG PGG A + A
Sbjct: 396 GGGGGPPGGGGAPGAPAAAAAPGAAAAAPA 425
Score = 28.7 bits (65), Expect = 0.85
Identities = 10/30 (33%), Positives = 11/30 (36%)
Query: 95 QGSGGAPGGFPGAPGAGAPPSGAPGAGPGP 124
GG G GAP + A A PG
Sbjct: 390 GPPSPGGGGGGPPGGGGAPGAPAAAAAPGA 419
Score = 26.8 bits (60), Expect = 4.5
Identities = 8/30 (26%), Positives = 9/30 (30%)
Query: 96 GSGGAPGGFPGAPGAGAPPSGAPGAGPGPT 125
GG A A + A A GP
Sbjct: 401 PPGGGGAPGAPAAAAAPGAAAAAPAAGGPA 430
Score = 26.4 bits (59), Expect = 5.7
Identities = 8/30 (26%), Positives = 9/30 (30%)
Query: 95 QGSGGAPGGFPGAPGAGAPPSGAPGAGPGP 124
G GG G + APGA
Sbjct: 394 PGGGGGGPPGGGGAPGAPAAAAAPGAAAAA 423
>gnl|CDD|218108 pfam04487, CITED, CITED. CITED, CBP/p300-interacting
transactivator with ED-rich tail, are characterized by a
conserved 32-amino acid sequence at the C-terminus.
CITED proteins do not bind DNA directly and are thought
to function as transcriptional co-activators.
Length = 206
Score = 30.2 bits (68), Expect = 0.18
Identities = 18/46 (39%), Positives = 20/46 (43%), Gaps = 9/46 (19%)
Query: 94 YQGSGGAPGGFPG-------APGAGAPPSG--APGAGPGPTIEEVD 130
YQG GAP G PG PGAG PP P P + + D
Sbjct: 112 YQGHAGAPAGHPGGGGPQQFRPGAGQPPGMQHMPAPALPPNVIDTD 157
>gnl|CDD|217051 pfam02463, SMC_N, RecF/RecN/SMC N terminal domain. This domain is
found at the N terminus of SMC proteins. The SMC
(structural maintenance of chromosomes) superfamily
proteins have ATP-binding domains at the N- and
C-termini, and two extended coiled-coil domains
separated by a hinge in the middle. The eukaryotic SMC
proteins form two kind of heterodimers: the SMC1/SMC3
and the SMC2/SMC4 types. These heterodimers constitute
an essential part of higher order complexes, which are
involved in chromatin and DNA dynamics. This family also
includes the RecF and RecN proteins that are involved in
DNA metabolism and recombination.
Length = 1162
Score = 29.9 bits (67), Expect = 0.32
Identities = 15/75 (20%), Positives = 32/75 (42%)
Query: 9 KAEDEKQKAVISAKNSLESYCFNMKSTVEDEKLKDKISDAERTQILDKCNDVIKWLDANQ 68
E+++++ + + ++ E LK + + + L + +K L+
Sbjct: 272 LKENKEEEKEKKLQEEELKLLAKEEEELKSELLKLERRKVDDEEKLKESEKELKKLEKEL 331
Query: 69 LAEKEEFEHKQKELE 83
EKEE E +KEL+
Sbjct: 332 KKEKEEIEELEKELK 346
>gnl|CDD|129582 TIGR00491, aIF-2, translation initiation factor aIF-2/yIF-2. This
model describes archaeal and eukaryotic orthologs of
bacterial IF-2. Like IF-2, it helps convey the initiator
tRNA to the ribosome, although the initiator is
N-formyl-Met in bacteria and Met here. This protein is
not closely related to the subunits of eIF-2 of
eukaryotes, which is also involved in the initiation of
translation. The aIF-2 of Methanococcus jannaschii
contains a large intein interrupting a region of very
strongly conserved sequence very near the amino end; the
alignment generated by This model does not correctly
align the sequences from Methanococcus jannaschii and
Pyrococcus horikoshii in this region [Protein synthesis,
Translation factors].
Length = 590
Score = 29.4 bits (66), Expect = 0.47
Identities = 26/94 (27%), Positives = 36/94 (38%), Gaps = 17/94 (18%)
Query: 2 VNDAEKYKAEDEKQKAVISAKNSLESYCFNMK--STVEDEKLKDKISDAERTQILDKCND 59
V +A K ED A+I+ FN+K E E K I I +
Sbjct: 391 VVEAGIAKQEDRVYGAIIA---------FNVKVLPGAEQELKKYDIKLFSDNIIYRLMEE 441
Query: 60 VIKWLDANQLAEKEEFEHKQKELEAICNPIITKL 93
+W+ E E E K+K +EAI P +L
Sbjct: 442 FEEWI------EGIEEEKKRKWMEAIIKPAKIRL 469
>gnl|CDD|236092 PRK07772, PRK07772, single-stranded DNA-binding protein;
Provisional.
Length = 186
Score = 28.8 bits (65), Expect = 0.52
Identities = 13/30 (43%), Positives = 15/30 (50%), Gaps = 1/30 (3%)
Query: 96 GSGGAPGGFPGAPGAGAP-PSGAPGAGPGP 124
G GG+ GG G G GAP GA + P
Sbjct: 136 GGGGSGGGGGGGGGGGAPGGGGAQASAPAD 165
Score = 27.7 bits (62), Expect = 1.3
Identities = 13/29 (44%), Positives = 14/29 (48%)
Query: 94 YQGSGGAPGGFPGAPGAGAPPSGAPGAGP 122
G GG GG GAPG G + AP P
Sbjct: 139 GSGGGGGGGGGGGAPGGGGAQASAPADDP 167
Score = 27.7 bits (62), Expect = 1.6
Identities = 11/31 (35%), Positives = 12/31 (38%)
Query: 94 YQGSGGAPGGFPGAPGAGAPPSGAPGAGPGP 124
+ G GG GG G G G P G P
Sbjct: 133 FGGGGGGSGGGGGGGGGGGAPGGGGAQASAP 163
Score = 27.3 bits (61), Expect = 2.0
Identities = 10/29 (34%), Positives = 10/29 (34%)
Query: 96 GSGGAPGGFPGAPGAGAPPSGAPGAGPGP 124
G GG GG G G G G G
Sbjct: 132 GFGGGGGGSGGGGGGGGGGGAPGGGGAQA 160
Score = 25.8 bits (57), Expect = 6.3
Identities = 13/28 (46%), Positives = 13/28 (46%), Gaps = 2/28 (7%)
Query: 96 GSGGAPGGFPGAPGAGAPPSGAPGAGPG 123
G GG GGF G G G G G G G
Sbjct: 125 GGGGGGGGFGG--GGGGSGGGGGGGGGG 150
>gnl|CDD|187810 cd09679, Cas10_III, CRISPR/Cas system-associated protein Cas10.
CRISPR (Clustered Regularly Interspaced Short
Palindromic Repeats) and associated Cas proteins
comprise a system for heritable host defense by
prokaryotic cells against phage and other foreign DNA;
Multidomain protein with permuted HD nuclease domain,
palm domain and Zn-ribbon; MTH326-like has inactivated
polymerase catalytic domain; alr1562 and slr7011 -
predicted only on the basis of size, presence of HD
domain, and location with RAMPs in one operon; signature
gene for type III; also known as Crm2 family.
Length = 475
Score = 29.3 bits (66), Expect = 0.56
Identities = 14/82 (17%), Positives = 31/82 (37%), Gaps = 3/82 (3%)
Query: 5 AEKYKAEDEKQKAVISAKNSLESYCFNMKSTVEDEKLKDKISDAERTQILDKCNDVIKWL 64
+K + +D + + S N + + E +LK++I + IL+K + +
Sbjct: 62 EKKLENKDNPELEIASLPNRFLAIVPGNEEEAE--ELKEEIEEETWESILNKVKEYLDIE 119
Query: 65 DANQLAEKEE-FEHKQKELEAI 85
+ K + E +E
Sbjct: 120 NVEPFLLKSDALERISDRIEDG 141
>gnl|CDD|235906 PRK07003, PRK07003, DNA polymerase III subunits gamma and tau;
Validated.
Length = 830
Score = 28.7 bits (64), Expect = 0.83
Identities = 12/29 (41%), Positives = 13/29 (44%)
Query: 96 GSGGAPGGFPGAPGAGAPPSGAPGAGPGP 124
GGAPGG A AGA P+ A
Sbjct: 363 TGGGAPGGGVPARVAGAVPAPGARAAAAV 391
>gnl|CDD|236090 PRK07764, PRK07764, DNA polymerase III subunits gamma and tau;
Validated.
Length = 824
Score = 28.8 bits (65), Expect = 0.90
Identities = 6/30 (20%), Positives = 7/30 (23%)
Query: 96 GSGGAPGGFPGAPGAGAPPSGAPGAGPGPT 125
G A A P+ AP
Sbjct: 388 AGGAGAPAAAAPSAAAAAPAAAPAPAAAAP 417
Score = 27.6 bits (62), Expect = 1.9
Identities = 8/28 (28%), Positives = 10/28 (35%)
Query: 97 SGGAPGGFPGAPGAGAPPSGAPGAGPGP 124
+ AP AP A P+ A A
Sbjct: 395 AAAAPSAAAAAPAAAPAPAAAAPAAAAA 422
Score = 26.9 bits (60), Expect = 4.0
Identities = 9/25 (36%), Positives = 10/25 (40%)
Query: 100 APGGFPGAPGAGAPPSGAPGAGPGP 124
AP A A P+ AP P P
Sbjct: 411 APAAAAPAAAAAPAPAAAPQPAPAP 435
Score = 26.1 bits (58), Expect = 6.9
Identities = 9/29 (31%), Positives = 10/29 (34%)
Query: 97 SGGAPGGFPGAPGAGAPPSGAPGAGPGPT 125
G GAP A AP + A P
Sbjct: 383 RRLGVAGGAGAPAAAAPSAAAAAPAAAPA 411
>gnl|CDD|188306 TIGR03319, RNase_Y, ribonuclease Y. Members of this family are
RNase Y, an endoribonuclease. The member from Bacillus
subtilis, YmdA, has been shown to be involved in
turnover of yitJ riboswitch [Transcription, Degradation
of RNA].
Length = 514
Score = 28.7 bits (65), Expect = 0.92
Identities = 20/91 (21%), Positives = 49/91 (53%), Gaps = 14/91 (15%)
Query: 1 MVNDAEKYKAEDEKQKAVISAKNSLESYCFNMKSTVEDEKLKDKISD--------AERTQ 52
++ +A+K +AE K++A++ AK + ++ +E E LK++ ++ +R +
Sbjct: 37 IIEEAKK-EAETLKKEALLEAKEEVHKL----RAELERE-LKERRNELQRLERRLLQREE 90
Query: 53 ILDKCNDVIKWLDANQLAEKEEFEHKQKELE 83
LD+ + + + N +++E +K+K L+
Sbjct: 91 TLDRKMESLDKKEENLEKKEKELSNKEKNLD 121
>gnl|CDD|234396 TIGR03919, T7SS_EccB, type VII secretion protein EccB,
Actinobacterial. This model represents the
transmembrane protein EccB of the actinobacterial flavor
of type VII secretion systems. Species such as
Mycobacterium tuberculosis have several instances of
this system per genome, designated EccB1, EccB2, etc.
This model does not identify functionally related
proteins in the Firmicutes such as Staphylococcus aureus
and Bacillus anthracis [Protein fate, Protein and
peptide secretion and trafficking].
Length = 456
Score = 28.4 bits (64), Expect = 0.95
Identities = 11/28 (39%), Positives = 13/28 (46%)
Query: 99 GAPGGFPGAPGAGAPPSGAPGAGPGPTI 126
G P P PGAGAP G P ++
Sbjct: 232 GPPLAAPAIPGAGAPGPVLLGGLPVGSV 259
>gnl|CDD|129816 TIGR00733, TIGR00733, putative oligopeptide transporter, OPT
family. This protein represents a small family of
integral membrane proteins from Gram-negative bacteria,
a Gram-positive bacteria, and an archaeal species.
Members of this family contain 15 to 18 GES predicted
transmembrane regions, and this family has extensive
homology to a family of yeast tetrapeptide transporters,
including isp4 (Schizosaccharomyces pombe) and Opt1
(Candida albicans). EspB, an apparent equivalog from
Myxococcus xanthus, shares an operon with a two
component system regulatory protein, and is required for
the normal timing of sporulation after the aggregation
of cells. This is consistent with a role in transporting
oligopeptides as signals across the membrane [Transport
and binding proteins, Amino acids, peptides and amines].
Length = 591
Score = 28.3 bits (63), Expect = 1.1
Identities = 8/33 (24%), Positives = 11/33 (33%), Gaps = 4/33 (12%)
Query: 88 PIITKLYQGSGGAPGGFPGAPGAGAPPSGAPGA 120
P++ L + A G G AP A
Sbjct: 447 PVLNLLIK----AYGIAGTPTAKGENALPAPQA 475
>gnl|CDD|218745 pfam05783, DLIC, Dynein light intermediate chain (DLIC). This
family consists of several eukaryotic dynein light
intermediate chain proteins. The light intermediate
chains (LICs) of cytoplasmic dynein consist of multiple
isoforms, which undergo post-translational modification
to produce a large number of species. DLIC1 is known to
be involved in assembly, organisation, and function of
centrosomes and mitotic spindles when bound to
pericentrin. DLIC2 is a subunit of cytoplasmic dynein 2
that may play a role in maintaining Golgi organisation
by binding cytoplasmic dynein 2 to its Golgi-associated
cargo.
Length = 490
Score = 28.3 bits (63), Expect = 1.2
Identities = 16/62 (25%), Positives = 26/62 (41%), Gaps = 2/62 (3%)
Query: 70 AEKEE-FEHKQKELEAICNPIITKLYQGSGGAPGGFPGAPGAGAPPSGAPGAGPGPTIEE 128
AE E+ F KQ+ L A T+ + +PGG P P P ++++
Sbjct: 347 AEDEQVFLMKQQSLLAKQPATPTRGVESPARSPGGSPRTTNRSG-PRNVASVSPMTSVKK 405
Query: 129 VD 130
+D
Sbjct: 406 ID 407
>gnl|CDD|189968 pfam01391, Collagen, Collagen triple helix repeat (20 copies).
Members of this family belong to the collagen
superfamily. Collagens are generally extracellular
structural proteins involved in formation of connective
tissue structure. The alignment contains 20 copies of
the G-X-Y repeat that forms a triple helix. The first
position of the repeat is glycine, the second and third
positions can be any residue but are frequently proline
and hydroxyproline. Collagens are post translationally
modified by proline hydroxylase to form the
hydroxyproline residues. Defective hydroxylation is the
cause of scurvy. Some members of the collagen
superfamily are not involved in connective tissue
structure but share the same triple helical structure.
Length = 60
Score = 26.7 bits (60), Expect = 1.2
Identities = 20/37 (54%), Positives = 20/37 (54%), Gaps = 8/37 (21%)
Query: 95 QGSGGAPG--GFPGAPGA----GAP-PSGAPGAGPGP 124
G G PG G PG PG G P P GAPGA PGP
Sbjct: 24 PGPPGPPGPPGPPGPPGPPGPPGPPGPPGAPGA-PGP 59
Score = 25.5 bits (57), Expect = 2.5
Identities = 17/37 (45%), Positives = 17/37 (45%), Gaps = 8/37 (21%)
Query: 95 QGSGGAPG-----GFPGAPGAGAP--PSGAPGAGPGP 124
G G PG G PG PG P P G PG PGP
Sbjct: 6 PGPPGPPGPPGPPGPPGPPGPPGPPGPPGPPGP-PGP 41
>gnl|CDD|140324 PTZ00303, PTZ00303, phosphatidylinositol kinase; Provisional.
Length = 1374
Score = 28.5 bits (63), Expect = 1.3
Identities = 19/66 (28%), Positives = 29/66 (43%), Gaps = 2/66 (3%)
Query: 64 LDANQLAEKEEFEHKQKELEAICNPIITKLYQGSGGAPGGFPGAPGAGAPPSGAPGAGPG 123
+D LA E+ + +Q A +P T +P G G+ G G+P S P P
Sbjct: 1190 IDDAFLAAVEQCQQRQCSCFAGPSPAATSSRARGCASPPGSSGSGGCGSPAS--PTKAPE 1247
Query: 124 PTIEEV 129
P+ E+
Sbjct: 1248 PSSAEI 1253
>gnl|CDD|221581 pfam12446, DUF3682, Protein of unknown function (DUF3682). This
domain family is found in eukaryotes, and is typically
between 125 and 136 amino acids in length.
Length = 133
Score = 27.5 bits (61), Expect = 1.3
Identities = 14/36 (38%), Positives = 15/36 (41%), Gaps = 1/36 (2%)
Query: 95 QGSGGAPGGFPGAPGAGAPPSGAPGAGPGPTIEEVD 130
G+GG G AP A P P A P P VD
Sbjct: 5 DGTGGVSSG-SSAPAPPAGPGPGPNAPPAPAAPGVD 39
>gnl|CDD|129310 TIGR00206, fliF, flagellar basal-body M-ring protein/flagellar
hook-basal body protein (fliF). Component of the M
(cytoplasmic associated) ring, one of four rings
(L,P,S,M) which make up the flagellar hook-basal body
which is a major portion of the flagellar organelle.
Although the basic structure of the flagella appears to
be similar for all bacteria, additional rings and
structures surrounding the basal body have been observed
for some bacteria (eg Vibrio cholerae and Treponema
pallidum) [Cellular processes, Chemotaxis and motility].
Length = 555
Score = 27.9 bits (62), Expect = 1.6
Identities = 16/61 (26%), Positives = 22/61 (36%), Gaps = 3/61 (4%)
Query: 71 EKEEFEHKQKELE---AICNPIITKLYQGSGGAPGGFPGAPGAGAPPSGAPGAGPGPTIE 127
+EE+ + E + + YQG G +PGG PG PP G E
Sbjct: 282 TEEEYAPNELESSDSTIRSSQTQEEEYQGQGYSPGGVPGQESNTPPPVQDLKDNTGNYEE 341
Query: 128 E 128
Sbjct: 342 S 342
>gnl|CDD|180801 PRK07033, PRK07033, hypothetical protein; Provisional.
Length = 427
Score = 27.7 bits (62), Expect = 1.6
Identities = 7/26 (26%), Positives = 9/26 (34%)
Query: 99 GAPGGFPGAPGAGAPPSGAPGAGPGP 124
G+ G P PG P + P
Sbjct: 10 GSGGFVPPNPGDRTPAAAPAAGAPFQ 35
>gnl|CDD|227512 COG5185, HEC1, Protein involved in chromosome segregation,
interacts with SMC proteins [Cell division and
chromosome partitioning].
Length = 622
Score = 28.0 bits (62), Expect = 1.7
Identities = 25/84 (29%), Positives = 36/84 (42%), Gaps = 6/84 (7%)
Query: 6 EKYKAEDEKQKAVISAKNSLESYCFNMKSTVED-----EKLKDKISDAE-RTQILDKCND 59
+K K EK +A+ S N E+Y MK ++ EKLK +I E + L D
Sbjct: 295 QKIKTLREKWRALKSDSNKYENYVNAMKQKSQEWPGKLEKLKSEIELKEEEIKALQSNID 354
Query: 60 VIKWLDANQLAEKEEFEHKQKELE 83
+ Q E+FE +E E
Sbjct: 355 ELHKQLRKQGISTEQFELMNQERE 378
>gnl|CDD|184038 PRK13410, PRK13410, molecular chaperone DnaK; Provisional.
Length = 668
Score = 27.7 bits (62), Expect = 1.8
Identities = 16/73 (21%), Positives = 30/73 (41%), Gaps = 2/73 (2%)
Query: 1 MVNDAEKYKAEDEKQKAVISAKNSLESYCFNMKSTVEDEKLKDKISDAERTQ--ILDKCN 58
M+ +AE ED +++ I +N + + + D L+ AER + +
Sbjct: 510 MIQEAEAKADEDRRRRERIEKRNRALTLIAQAERRLRDAALEFGPYFAERQRRAVESAMR 569
Query: 59 DVIKWLDANQLAE 71
DV L+ + E
Sbjct: 570 DVQDSLEQDDDRE 582
>gnl|CDD|235745 PRK06214, PRK06214, sulfite reductase; Provisional.
Length = 530
Score = 27.7 bits (62), Expect = 2.0
Identities = 14/55 (25%), Positives = 20/55 (36%), Gaps = 8/55 (14%)
Query: 75 FEHKQKELEAICNP-------IITKLYQGSGGAPGGFPGAPGAGAPPSGAPGAGP 122
++K L +C P ++ KL + G AP A A A GP
Sbjct: 107 ASGEEKRLN-LCAPGGKETARMLKKLAEEFGAAPAAAAPAAAAADAAPAAAALGP 160
>gnl|CDD|237537 PRK13875, PRK13875, conjugal transfer protein TrbL; Provisional.
Length = 440
Score = 27.6 bits (62), Expect = 2.2
Identities = 10/24 (41%), Positives = 13/24 (54%)
Query: 95 QGSGGAPGGFPGAPGAGAPPSGAP 118
+ +GG GG A AGA +G P
Sbjct: 376 RSTGGGAGGAAAAAAAGAAAAGPP 399
>gnl|CDD|226808 COG4371, COG4371, Predicted membrane protein [Function unknown].
Length = 334
Score = 27.6 bits (61), Expect = 2.2
Identities = 9/29 (31%), Positives = 10/29 (34%)
Query: 96 GSGGAPGGFPGAPGAGAPPSGAPGAGPGP 124
GS AP G+ G P G G
Sbjct: 56 GSFRAPSGYSRGYSGGGPSGGGYSGGGYS 84
>gnl|CDD|239500 cd03406, Band_7_3, A subgroup of the band 7 domain of flotillin
(reggie) like proteins. This subgroup contains proteins
similar to stomatin, prohibitin, flotillin, HlfK/C and
podicin. Many of these band 7 domain-containing
proteins are lipid raft-associated. Individual proteins
of this band 7 domain family may cluster to form
membrane microdomains which may in turn recruit
multiprotein complexes. Microdomains formed from
flotillin proteins may in addition be dynamic units with
their own regulatory functions. Flotillins have been
implicated in signal transduction, vesicle trafficking,
cytoskeleton rearrangement and are known to interact
with a variety of proteins. Stomatin interacts with and
regulates members of the degenerin/epithelia Na+ channel
family in mechanosensory cells of Caenorhabditis elegans
and vertebrate neurons and participates in trafficking
of Glut1 glucose transporters. Prohibitin may act as a
chaperone for the stabilization of mitochondrial
proteins. Prokaryotic HflK/C plays a role in the
decision between lysogenic and lytic cycle growth during
lambda phage infection. Flotillins have been implicated
in the progression of prion disease, in the pathogenesis
of neurodegenerative diseases such as Parkinson's and
Alzheimer's disease and, in cancer invasion and
metastasis. Mutations in the podicin gene give rise to
autosomal recessive steroid resistant nephritic
syndrome.
Length = 280
Score = 27.1 bits (60), Expect = 2.8
Identities = 27/100 (27%), Positives = 44/100 (44%), Gaps = 12/100 (12%)
Query: 5 AEKYKAEDEKQKAVISAKNSLESYCFNMKSTVEDEKLKDKISDAERTQILDK-------- 56
EK +AE E++KAVI A+ + V +++ + +IS+ E L +
Sbjct: 185 VEK-EAETERKKAVIEAEKVAQVAKILFGQKVMEKETEKRISEIEDEAFLAREKAKADAE 243
Query: 57 CNDVIKWLDANQLAEKEEFEHKQKELEAICNPIITKLYQG 96
K +AN+L E+ K EAI +K+Y G
Sbjct: 244 YYTAQKEAEANKLKLTPEYLELMK-YEAIAAN--SKIYFG 280
>gnl|CDD|185594 PTZ00395, PTZ00395, Sec24-related protein; Provisional.
Length = 1560
Score = 27.3 bits (60), Expect = 3.0
Identities = 16/38 (42%), Positives = 18/38 (47%)
Query: 92 KLYQGSGGAPGGFPGAPGAGAPPSGAPGAGPGPTIEEV 129
K YQ GG G P A AGAP +G G I +V
Sbjct: 334 KTYQIYGGFHDGSPNAASAGAPFNGLGNQADGGHINQV 371
>gnl|CDD|113384 pfam04611, AalphaY_MDB, Mating type protein A alpha Y mating type
dependent binding region. This region is important for
the mating type dependent binding of Y protein to the A
alpha Z protein of another mating type in Schizophyllum
commune.
Length = 147
Score = 26.7 bits (59), Expect = 3.1
Identities = 9/17 (52%), Positives = 14/17 (82%)
Query: 5 AEKYKAEDEKQKAVISA 21
E+++AE EKQ+A I+A
Sbjct: 126 PERWRAEMEKQRAHITA 142
>gnl|CDD|219133 pfam06682, DUF1183, Protein of unknown function (DUF1183). This
family consists of several eukaryotic proteins of around
360 residues in length. The function of this family is
unknown.
Length = 317
Score = 27.0 bits (60), Expect = 3.1
Identities = 13/30 (43%), Positives = 14/30 (46%)
Query: 95 QGSGGAPGGFPGAPGAGAPPSGAPGAGPGP 124
G GG GG G G G PP G + P P
Sbjct: 197 GGGGGGGGGGGGGSGPGPPPPGFKSSFPPP 226
Score = 26.2 bits (58), Expect = 6.4
Identities = 13/28 (46%), Positives = 13/28 (46%)
Query: 96 GSGGAPGGFPGAPGAGAPPSGAPGAGPG 123
G GG G PG P G S P GPG
Sbjct: 203 GGGGGGGSGPGPPPPGFKSSFPPPYGPG 230
>gnl|CDD|220562 pfam10092, DUF2330, Uncharacterized protein conserved in bacteria
(DUF2330). Members of this family of hypothetical
bacterial proteins have no known function.
Length = 337
Score = 26.9 bits (60), Expect = 3.3
Identities = 12/34 (35%), Positives = 14/34 (41%), Gaps = 1/34 (2%)
Query: 94 YQGSGGAPGGFPGAPGAGAPPSGAPGAGPGPTIE 127
Q G GAGAP + AG G T+E
Sbjct: 85 EQDPCAGGWGLDRGGGAGAPDAAGAAAG-GVTVE 117
>gnl|CDD|227507 COG5180, PBP1, Protein interacting with poly(A)-binding protein
[RNA processing and modification].
Length = 654
Score = 27.0 bits (59), Expect = 3.4
Identities = 12/27 (44%), Positives = 14/27 (51%)
Query: 95 QGSGGAPGGFPGAPGAGAPPSGAPGAG 121
G+ G PGG P G+ PSG P G
Sbjct: 599 MGAFGYPGGIPFQGMMGSGPSGMPANG 625
>gnl|CDD|240419 PTZ00440, PTZ00440, reticulocyte binding protein 2-like protein;
Provisional.
Length = 2722
Score = 27.1 bits (60), Expect = 3.9
Identities = 22/86 (25%), Positives = 43/86 (50%), Gaps = 7/86 (8%)
Query: 13 EKQKAVISAKNSLESYCFNMKSTVEDEKLKDKIS-DAERTQILDKCNDVIKWLDANQLAE 71
+ +K S KN +++ ++ V+ +KD IS + E I+ + I+ L L
Sbjct: 557 KDEKLKRSMKNDIKNKIKYIEENVD--HIKDIISLNDEIDNIIQQ----IEELINEALFN 610
Query: 72 KEEFEHKQKELEAICNPIITKLYQGS 97
KE+F +++ +L+ I+ K Y+G
Sbjct: 611 KEKFINEKNDLQEKVKYILNKFYKGD 636
>gnl|CDD|115382 pfam06720, Phi-29_GP16_7, Bacteriophage phi-29 early protein
GP16.7. This family consists of several bacteriophage
phi-29 early protein GP16.7 sequences of around 130
residues in length. The function of this family is
unknown.
Length = 130
Score = 26.1 bits (57), Expect = 4.4
Identities = 15/36 (41%), Positives = 21/36 (58%), Gaps = 5/36 (13%)
Query: 31 NMKSTVEDEKLKDKISD-----AERTQILDKCNDVI 61
N K E +L+D + D A+RTQIL + N+VI
Sbjct: 22 NNKKIQEARELEDYLEDLNKRIAQRTQILSELNEVI 57
>gnl|CDD|216996 pfam02364, Glucan_synthase, 1,3-beta-glucan synthase component.
This family consists of various 1,3-beta-glucan synthase
components including Gls1, Gls2 and Gls3 from yeast.
1,3-beta-glucan synthase EC:2.4.1.34 also known as
callose synthase catalyzes the formation of a
beta-1,3-glucan polymer that is a major component of the
fungal cell wall. The reaction catalyzed is:-
UDP-glucose + {(1,3)-beta-D-glucosyl}(N) <=> UDP +
{(1,3)-beta-D-glucosyl}(N+1).
Length = 818
Score = 26.6 bits (59), Expect = 4.8
Identities = 13/55 (23%), Positives = 25/55 (45%), Gaps = 1/55 (1%)
Query: 1 MVNDAEKYKAEDEKQKAVISAK-NSLESYCFNMKSTVEDEKLKDKISDAERTQIL 54
D+E+ + ++ +K + L YC KS + L+ +I + R+Q L
Sbjct: 90 EETDSEEGTTKSRDERDWAKSKIDDLPFYCIGFKSAAPEYTLRTRIWASLRSQTL 144
>gnl|CDD|240291 PTZ00146, PTZ00146, fibrillarin; Provisional.
Length = 293
Score = 26.2 bits (58), Expect = 4.8
Identities = 12/28 (42%), Positives = 12/28 (42%)
Query: 96 GSGGAPGGFPGAPGAGAPPSGAPGAGPG 123
G GG GG G G G G G G G
Sbjct: 13 GRGGGGGGGRGGGGRGGGRGGGRGRGRG 40
Score = 25.8 bits (57), Expect = 6.8
Identities = 9/29 (31%), Positives = 9/29 (31%)
Query: 95 QGSGGAPGGFPGAPGAGAPPSGAPGAGPG 123
G G G G G G G G G
Sbjct: 24 GGGRGGGRGGGRGRGRGGGGGGRGGGGGG 52
>gnl|CDD|177506 PHA03003, PHA03003, palmytilated EEV membrane glycoprotein;
Provisional.
Length = 369
Score = 26.6 bits (59), Expect = 4.9
Identities = 13/41 (31%), Positives = 23/41 (56%), Gaps = 3/41 (7%)
Query: 16 KAVIS-AKNSLE--SYCFNMKSTVEDEKLKDKISDAERTQI 53
+IS AK + S+C N++ST E + DK+ +A + +
Sbjct: 37 DEIISQAKKYIYIASFCCNLRSTPEGRLILDKLKEAAESGV 77
>gnl|CDD|223021 PHA03247, PHA03247, large tegument protein UL36; Provisional.
Length = 3151
Score = 26.4 bits (58), Expect = 5.1
Identities = 10/30 (33%), Positives = 10/30 (33%)
Query: 95 QGSGGAPGGFPGAPGAGAPPSGAPGAGPGP 124
AP G P APPS P P
Sbjct: 2595 SARPRAPVDDRGDPRGPAPPSPLPPDTHAP 2624
>gnl|CDD|219420 pfam07466, DUF1517, Protein of unknown function (DUF1517). This
family consists of several hypothetical glycine rich
plant and bacterial proteins of around 300 residues in
length. The function of this family is unknown.
Length = 280
Score = 26.1 bits (58), Expect = 5.3
Identities = 9/31 (29%), Positives = 12/31 (38%)
Query: 96 GSGGAPGGFPGAPGAGAPPSGAPGAGPGPTI 126
GS AP +P + +P G PG
Sbjct: 11 GSFRAPSRSSSSPRSSSPGGGGYYGSPGGGF 41
>gnl|CDD|240324 PTZ00234, PTZ00234, variable surface protein Vir12; Provisional.
Length = 433
Score = 26.5 bits (58), Expect = 5.4
Identities = 16/45 (35%), Positives = 20/45 (44%), Gaps = 4/45 (8%)
Query: 87 NPIITKL----YQGSGGAPGGFPGAPGAGAPPSGAPGAGPGPTIE 127
NP+IT+L QGS G+ F G + P AP G E
Sbjct: 214 NPLITELAKCKTQGSNGSQSSFLGWFWGSSSPKTAPSKGSPGAQE 258
>gnl|CDD|218621 pfam05518, Totivirus_coat, Totivirus coat protein.
Length = 753
Score = 26.3 bits (58), Expect = 5.6
Identities = 11/35 (31%), Positives = 14/35 (40%)
Query: 96 GSGGAPGGFPGAPGAGAPPSGAPGAGPGPTIEEVD 130
GG PGG G P P+ A A G ++
Sbjct: 699 RPGGPPGGGGGLPPPPDLPAAAGPAPCGSSLIASP 733
>gnl|CDD|114217 pfam05481, Myco_19_kDa, Mycobacterium 19 kDa lipoprotein antigen.
Most of the antigens of Mycobacterium leprae and M.
tuberculosis that have been identified are members of
stress protein families, which are highly conserved
throughout many diverse species. Of the M. leprae and M.
tuberculosis antigens identified by monoclonal
antibodies, all except the 18-kDa M. leprae antigen and
the 19-kDa M. tuberculosis antigen are strongly
cross-reactive between these two species and are coded
within very similar genes.
Length = 160
Score = 26.1 bits (57), Expect = 5.8
Identities = 14/54 (25%), Positives = 23/54 (42%), Gaps = 7/54 (12%)
Query: 78 KQKELEAICNPIITKLYQGSGGAPGGFPGAPGAG-----APPSGAPGAGPGPTI 126
++K L A+ I L G+ G G P + +P + +PGA G +
Sbjct: 2 RRKLLAAVAGVTI--LAAGASGCSSGNKSTPSSSKTTNSSPTTASPGAAAGEKV 53
>gnl|CDD|221825 pfam12877, DUF3827, Domain of unknown function (DUF3827). This
family contains the human KIAA1549 protein which has
been found to be fused fused to BRAF gene in many cases
of pilocytic astrocytomas. The fusion is due mainly to a
tandem duplication of 2 Mb at 7q34. Although nothing is
known about the function of KIAA1549 protein, the BRAF
protein is a well characterized oncoprotein. It is a
serine/threonine protein kinase which is implicated in
MAP/ERK signalling, a critical pathway for the
regulation of cell division, differentiation and
secretion.
Length = 684
Score = 26.4 bits (58), Expect = 6.0
Identities = 9/30 (30%), Positives = 11/30 (36%)
Query: 100 APGGFPGAPGAGAPPSGAPGAGPGPTIEEV 129
+ P G PS P+IEEV
Sbjct: 636 SRSYSPTRGPKGHDPSEPSYLSSQPSIEEV 665
>gnl|CDD|222018 pfam13274, DUF4065, Protein of unknown function (DUF4065). This
family of proteins is functionally uncharacterized.
This family of proteins is found in bacteria, archaea
and viruses. Proteins in this family are typically
between 155 and 202 amino acids in length.
Length = 99
Score = 25.3 bits (56), Expect = 6.4
Identities = 12/46 (26%), Positives = 23/46 (50%), Gaps = 1/46 (2%)
Query: 27 SYCFNMKSTVEDEKLKDKISDAERTQILDKCNDVIKWLDANQLAEK 72
+ +DE D++S+ E+ +ILD+ + L A +L+E
Sbjct: 45 EGYGSEPIIKKDEGDLDELSEEEK-EILDEVIEKYGNLSAKELSEL 89
>gnl|CDD|223065 PHA03378, PHA03378, EBNA-3B; Provisional.
Length = 991
Score = 26.2 bits (57), Expect = 7.0
Identities = 12/33 (36%), Positives = 14/33 (42%), Gaps = 3/33 (9%)
Query: 95 QGSGGAPGGFP---GAPGAGAPPSGAPGAGPGP 124
+ APG APG PP+ APG P
Sbjct: 735 RPPAAAPGRARPPAAAPGRARPPAAAPGRARPP 767
>gnl|CDD|183757 PRK12800, fliF, flagellar MS-ring protein; Reviewed.
Length = 574
Score = 26.1 bits (57), Expect = 7.6
Identities = 13/31 (41%), Positives = 13/31 (41%), Gaps = 2/31 (6%)
Query: 95 QGSGGAPGGFPGAPGAGAPP--SGAPGAGPG 123
QG GA PG P A A G P A G
Sbjct: 315 QGPPGATSNSPGQPPAPAAAGAPGTPAAANG 345
>gnl|CDD|221459 pfam12200, DUF3597, Domain of unknown function (DUF3597). This
family of proteins is found in bacteria, eukaryotes and
viruses. Proteins in this family are typically between
126 and 281 amino acids in length. The function of this
domain is unknown. The structure of this domain has been
found to contain five helices with a long flexible loop
between helices one and two.
Length = 124
Score = 25.4 bits (56), Expect = 7.6
Identities = 9/31 (29%), Positives = 10/31 (32%)
Query: 100 APGGFPGAPGAGAPPSGAPGAGPGPTIEEVD 130
AP A A + A A P VD
Sbjct: 17 APAPAAAPATAPAAAAAAAPAATPPAAASVD 47
>gnl|CDD|235062 PRK02724, PRK02724, hypothetical protein; Provisional.
Length = 104
Score = 25.1 bits (55), Expect = 7.7
Identities = 10/29 (34%), Positives = 18/29 (62%), Gaps = 6/29 (20%)
Query: 39 EKLKDK------ISDAERTQILDKCNDVI 61
E+LK + I++ ER ++L+K +VI
Sbjct: 48 EQLKTELESKHWITENERVEVLNKATEVI 76
>gnl|CDD|223039 PHA03307, PHA03307, transcriptional regulator ICP4; Provisional.
Length = 1352
Score = 25.9 bits (57), Expect = 7.8
Identities = 11/35 (31%), Positives = 14/35 (40%)
Query: 96 GSGGAPGGFPGAPGAGAPPSGAPGAGPGPTIEEVD 130
GS PG P PP +P P P + E+
Sbjct: 104 GSPTPPGPSSPDPPPPTPPPASPPPSPAPDLSEML 138
>gnl|CDD|234519 TIGR04244, nitrous_NosZ_RR, nitrous-oxide reductase, TAT-dependent.
Members of this family are the nitrous-oxide reductase
structural protein, NosZ, with an N-terminal
twin-arginine translocation (TAT) signal sequence (see
TIGR01409). The TAT system replaces the Sec system for
export of proteins with bound cofactor.
Length = 627
Score = 25.8 bits (57), Expect = 7.8
Identities = 10/32 (31%), Positives = 12/32 (37%)
Query: 96 GSGGAPGGFPGAPGAGAPPSGAPGAGPGPTIE 127
+G A G GA GA A + A A
Sbjct: 13 LAGLAGAGAAGAAGAAAAAAAAAAAAAAGKYH 44
>gnl|CDD|177553 PHA03185, PHA03185, UL14 tegument protein; Provisional.
Length = 214
Score = 25.8 bits (56), Expect = 7.9
Identities = 14/29 (48%), Positives = 14/29 (48%), Gaps = 4/29 (13%)
Query: 97 SGGAPGGFPGAPGAGAPPSGAPGAGPGPT 125
SG GG PG GAP P PGPT
Sbjct: 174 SGPVAGGL---PGGGAPAPPTPPR-PGPT 198
>gnl|CDD|240892 cd12446, RRM_RBM25, RNA recognition motif in eukaryotic
RNA-binding protein 25 and similar proteins. This
subfamily corresponds to the RRM of RBM25, also termed
Arg/Glu/Asp-rich protein of 120 kDa (RED120), or
protein S164, or RNA-binding region-containing protein
7, an evolutionary-conserved splicing coactivator
SRm160 (SR-related nuclear matrix protein of 160 kDa,
)-interacting protein. RBM25 belongs to a family of
RNA-binding proteins containing a well conserved RNA
recognition motif (RRM), also termed RBD (RNA binding
domain) or RNP (ribonucleoprotein domain), at the
N-terminus, a RE/RD-rich (ER) central region, and a
C-terminal proline-tryptophan-isoleucine (PWI) motif.
It localizes to the nuclear speckles and associates
with multiple splicing components, including splicing
cofactors SRm160/300, U snRNAs, assembled splicing
complexes, and spliced mRNAs. It may play an important
role in pre-mRNA processing by coupling splicing with
mRNA 3'-end formation. Additional research indicates
that RBM25 is one of the RNA-binding regulators that
direct the alternative splicing of apoptotic factors.
It can activate proapoptotic Bcl-xS 5'ss by binding to
the exonic splicing enhancer, CGGGCA, and stabilize the
pre-mRNA-U1 snRNP through interaction with hLuc7A, a U1
snRNP-associated factor. .
Length = 84
Score = 24.9 bits (55), Expect = 8.0
Identities = 7/24 (29%), Positives = 14/24 (58%)
Query: 40 KLKDKISDAERTQILDKCNDVIKW 63
+ + +SD ++L+KC V+ W
Sbjct: 7 NIPEGVSDDFIRKLLEKCGKVLSW 30
>gnl|CDD|188223 TIGR02458, CbtA, cobalt transporter subunit CbtA (proposed). This
model represents a family of proteins which have been
proposed to act as cobalt transporters acting in concert
with vitamin B12 biosynthesis systems. Evidence for this
assignment includes 1) prediction of five trans-membrane
segments, 2) positional gene linkage with known B12
biosynthesis genes, 3) upstream proximity of B12
transcriptional regulatory sites, 4) the absence of
other known cobalt import systems and 5) the obligate
co-localization with a small protein (CbtB) having a
single additional trans-membrane segment and a
C-terminal histidine-rich motif likely to be a
metal-binding site.
Length = 225
Score = 25.5 bits (56), Expect = 8.1
Identities = 8/29 (27%), Positives = 12/29 (41%), Gaps = 2/29 (6%)
Query: 88 PIITK--LYQGSGGAPGGFPGAPGAGAPP 114
P+I + Y+ + A A A A P
Sbjct: 26 PLILQAETYETAEVAALSHEHAEAASAVP 54
>gnl|CDD|147458 pfam05268, GP38, Phage tail fibre adhesin Gp38. This family
contains several Gp38 proteins from T-even-like phages.
Gp38, together with a second phage protein, gp57,
catalyzes the organisation of gp37 but is absent from
the phage particle. Gp37 is responsible for receptor
recognition.
Length = 261
Score = 25.5 bits (56), Expect = 8.5
Identities = 12/34 (35%), Positives = 13/34 (38%), Gaps = 4/34 (11%)
Query: 96 GSGGAPGGFPGAPGAGAPPSGA----PGAGPGPT 125
G GG P G G G+ A PG G G
Sbjct: 175 GGGGRPFGAGGKSGSHMSGGNASLTAPGGGSGTG 208
>gnl|CDD|218205 pfam04674, Phi_1, Phosphate-induced protein 1 conserved region.
Family of conserved plant proteins. Conserved region
identified in a phosphate-induced protein of unknown
function.
Length = 273
Score = 25.8 bits (57), Expect = 8.7
Identities = 11/40 (27%), Positives = 13/40 (32%), Gaps = 13/40 (32%)
Query: 83 EAICNPIITKLYQGSGGAP-------------GGFPGAPG 109
+ NP YQG AP G +PG G
Sbjct: 195 GTVTNPFGNGYYQGDATAPLEAASACPGVYGSGAYPGYAG 234
>gnl|CDD|237211 PRK12798, PRK12798, chemotaxis protein; Reviewed.
Length = 421
Score = 25.8 bits (57), Expect = 9.0
Identities = 16/71 (22%), Positives = 25/71 (35%), Gaps = 9/71 (12%)
Query: 64 LDANQLAEKEEFEHKQKELEA---ICNPIITKLYQGSGGAPGGFP-GAPGAGAPPSGAPG 119
+D ++L+E++ + LEA + + P A AP AP
Sbjct: 321 IDRDKLSERD-----RALLEAARSVARQVRRAPATSPAKRSADAASEPPSAVAPAPQAPA 375
Query: 120 AGPGPTIEEVD 130
P EVD
Sbjct: 376 QLPLSVPVEVD 386
>gnl|CDD|149086 pfam07820, TraC, TraC-like protein. The members of this family are
sequences that are similar to TraC. The gene encoding
this protein is one of a group of genes found on plasmid
p42a of Rhizobium etli CFN42 that are thought to be
involved in the process of plasmid self-transmission.
Mobilisation of plasmid p42a is of importance as it is
required for transfer of plasmid p42a, which is also
known as plasmid pSym as it carries most of the genes
required for nodulation and nitrogen fixation by the
symbiotic bacterium. The predicted protein products of
p42a are similar to known transfer proteins of
Agrobacterium tumefaciens plasmid pTiC58.
Length = 92
Score = 24.7 bits (54), Expect = 9.0
Identities = 17/51 (33%), Positives = 23/51 (45%), Gaps = 1/51 (1%)
Query: 74 EFEHKQKELEAICNPIITKLYQGSGGAPGGFPGAPGAGAP-PSGAPGAGPG 123
E E +++EL+A I + G G A GG A A +GA PG
Sbjct: 40 EIEIEEEELQAAFEEIAARFRGGKGKAAGGAGAASARTAAGGTGAAAGVPG 90
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
0.308 0.130 0.375
Gapped
Lambda K H
0.267 0.0685 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 6,631,795
Number of extensions: 586441
Number of successful extensions: 1172
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1093
Number of HSP's successfully gapped: 148
Length of query: 130
Length of database: 10,937,602
Length adjustment: 86
Effective length of query: 44
Effective length of database: 7,123,158
Effective search space: 313418952
Effective search space used: 313418952
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.6 bits)
S2: 53 (24.3 bits)