RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy200
(490 letters)
>gnl|CDD|224391 COG1474, CDC6, Cdc6-related protein, AAA superfamily ATPase [DNA
replication, recombination, and repair /
Posttranslational modification, protein turnover,
chaperones].
Length = 366
Score = 155 bits (394), Expect = 6e-43
Identities = 81/298 (27%), Positives = 143/298 (47%), Gaps = 21/298 (7%)
Query: 195 ELPGREVQLEGIRQFLLGHVNNETSGSMYISGPPGTGKSASLNLLVSRAEIKDA-FKTIY 253
ELP RE ++ + FL + E ++ I GP GTGK+A++ ++ E A + +Y
Sbjct: 18 ELPHREEEINQLASFLAPALRGERPSNIIIYGPTGTGKTATVKFVMEELEESSANVEVVY 77
Query: 254 INCNSVRNAASVYETIVNELKLKP--GGKSERHQLGAILKYFDTKHKSILLILDEIDALE 311
INC +R V I+N+L P G S L + K K++++ILDE+DAL
Sbjct: 78 INCLELRTPYQVLSKILNKLGKVPLTGDSSLEI-LKRLYDNLSKKGKTVIVILDEVDALV 136
Query: 312 SRKQTILYTIFEWPSIPGSKLVLVGVANALDLTDRMLPRLQANVTLQPTLMNFAPYSREQ 371
+ +LY++ P K+ ++ V+N D + PR++++ L P+ + F PY+ E+
Sbjct: 137 DKDGEVLYSLLRAPGENKVKVSIIAVSNDDKFLDYLDPRVKSS--LGPSEIVFPPYTAEE 194
Query: 372 ILEIISQKLKQTDKFNMFNASALQLLAGKVAAVSGDIRKAIDITNHLIDLTYDNVKENGE 431
+ +I+ +++++ + + L+L+A VAA SGD RKAIDI E E
Sbjct: 195 LYDILRERVEEGFSAGVIDDDVLKLIAALVAAESGDARKAIDILRR--------AGEIAE 246
Query: 432 VTG---IGLKEVLGVISSVYCTSQSLHCSKDEDSFPLQQKLALASLLLLKSRPNVKDV 486
G + V + + + PL QK+ L +++ L + ++
Sbjct: 247 REGSRKVSEDHVREAQEEIE----RDVLEEVLKTLPLHQKIVLLAIVELTVEISTGEL 300
>gnl|CDD|234063 TIGR02928, TIGR02928, orc1/cdc6 family replication initiation
protein. Members of this protein family are found
exclusively in the archaea. This set of DNA binding
proteins shows homology to the origin recognition
complex subunit 1/cell division control protein 6 family
in eukaryotes. Several members may be found in genome
and interact with each other [DNA metabolism, DNA
replication, recombination, and repair].
Length = 365
Score = 111 bits (281), Expect = 4e-27
Identities = 56/233 (24%), Positives = 108/233 (46%), Gaps = 15/233 (6%)
Query: 195 ELPGREVQLEGIRQFLLGHVNNETSGSMYISGPPGTGKSAS----LNLLVSRAEIKDA-F 249
+ R+ Q+E + + L + +++I G GTGK+A + L AE +D
Sbjct: 16 RIVHRDEQIEELAKALRPILRGSRPSNVFIYGKTGTGKTAVTKYVMKELEEAAEDRDVRV 75
Query: 250 KTIYINCNSVRNAASVYETIVNELKLKPG-----GKSERHQLGAILKYFDTKHKSILLIL 304
T+Y+NC + V + N+L+ G S + K + + S++++L
Sbjct: 76 VTVYVNCQILDTLYQVLVELANQLRGSGEEVPTTGLSTSEVFRRLYKELNERGDSLIIVL 135
Query: 305 DEIDALESRKQTILYTI---FEWPSIPGSKLVLVGVANALDLTDRMLPRLQANVTLQPTL 361
DEID L +LY + + +K+ ++G++N L + + PR+++ +L
Sbjct: 136 DEIDYLVGDDDDLLYQLSRARSNGDLDNAKVGVIGISNDLKFRENLDPRVKS--SLCEEE 193
Query: 362 MNFAPYSREQILEIISQKLKQTDKFNMFNASALQLLAGKVAAVSGDIRKAIDI 414
+ F PY E++ +I+ + ++ + + + L A A GD RKAID+
Sbjct: 194 IIFPPYDAEELRDILENRAEKAFYDGVLDDGVIPLCAALAAQEHGDARKAIDL 246
>gnl|CDD|240274 PTZ00112, PTZ00112, origin recognition complex 1 protein;
Provisional.
Length = 1164
Score = 114 bits (286), Expect = 1e-26
Identities = 102/359 (28%), Positives = 175/359 (48%), Gaps = 35/359 (9%)
Query: 74 RSLKLDSPKRKIDTA--LEFASPKRVFKDADATSSGAASAVDATSTSDAVRSVSGSRSSA 131
+SLKL K KI+ + S K A T+S A T S ++ +
Sbjct: 640 KSLKLIIEKLKINEQGGQKKNSKKEYMNPAQTTTSSKAKTHSKTKNDHNKSKTSKNKEPS 699
Query: 132 KADCLRPLSPIKNIILDKKSPFKAFIRDDED-----LIKRSPAKLCSPRKLLFSEDKPKV 186
L +K FK+FI+ D++ L++ +++ + PK
Sbjct: 700 ST---SFLQDVKKKSDPHNVDFKSFIKQDQENYYVNLLRNITDPTDKAIRMMQLDVVPKY 756
Query: 187 EEKAKDSCELPGREVQLEGIRQFLLGHVNNETSGS-MYISGPPGTGKSASLNLLVSRAEI 245
LP RE +++ + FL + S +YISG PGTGK+A++ ++ +
Sbjct: 757 ---------LPCREKEIKEVHGFLESGIKQSGSNQILYISGMPGTGKTATVYSVIQLLQH 807
Query: 246 KD------AFKTIYINCNSVRNAASVYETIVNEL--KLKPGGKSERHQLGAILKYF--DT 295
K +F IN +V + + Y+ + +L K P + L + D
Sbjct: 808 KTKQKLLPSFNVFEINGMNVVHPNAAYQVLYKQLFNKKPPNALNSFKILDRLFNQNKKDN 867
Query: 296 KHKSILLILDEIDALESRKQTILYTIFEWPSIPGSKLVLVGVANALDLTDRMLPRLQANV 355
++ SIL+I DEID L ++ Q +L+T+F+WP+ SKLVL+ ++N +DL +R++PR ++ +
Sbjct: 868 RNVSILII-DEIDYLITKTQKVLFTLFDWPTKINSKLVLIAISNTMDLPERLIPRCRSRL 926
Query: 356 TLQPTLMNFAPYSREQILEIISQKLKQTDKFNMFNASALQLLAGKVAAVSGDIRKAIDI 414
+ F+PY ++I +II ++L+ + + + +A+QL A KVA VSGDIRKA+ I
Sbjct: 927 AFGRLV--FSPYKGDEIEKIIKERLENCKE--IIDHTAIQLCARKVANVSGDIRKALQI 981
>gnl|CDD|234751 PRK00411, cdc6, cell division control protein 6; Reviewed.
Length = 394
Score = 102 bits (257), Expect = 8e-24
Identities = 59/226 (26%), Positives = 111/226 (49%), Gaps = 8/226 (3%)
Query: 195 ELPGREVQLEGIRQFLLGHVNNETSGSMYISGPPGTGKSASLNLLVSRAE-IKDAFKTIY 253
LP RE Q+E + L + ++ I GPPGTGK+ ++ + E I +Y
Sbjct: 31 NLPHREEQIEELAFALRPALRGSRPLNVLIYGPPGTGKTTTVKKVFEELEEIAVKVVYVY 90
Query: 254 INCNSVRNAASVYETIVNELKLKP---GGKSERHQLGAILKYFDTKHKSILLILDEIDAL 310
INC R +++ I +L P G S I +Y D + + +++ LD+I+ L
Sbjct: 91 INCQIDRTRYAIFSEIARQLFGHPPPSSGLSFDELFDKIAEYLDERDRVLIVALDDINYL 150
Query: 311 -ESRKQTILYTIFEWP-SIPGSKLVLVGVANALDLTDRMLPRLQANVTLQPTLMNFAPYS 368
E +LY++ PG+++ ++G+++ L + PR+++ +P + F PY+
Sbjct: 151 FEKEGNDVLYSLLRAHEEYPGARIGVIGISSDLTFLYILDPRVKS--VFRPEEIYFPPYT 208
Query: 369 REQILEIISQKLKQTDKFNMFNASALQLLAGKVAAVSGDIRKAIDI 414
++I +I+ ++++ + + L L+A A GD R AID+
Sbjct: 209 ADEIFDILKDRVEEGFYPGVVDDEVLDLIADLTAREHGDARVAIDL 254
>gnl|CDD|222104 pfam13401, AAA_22, AAA domain.
Length = 124
Score = 70.0 bits (172), Expect = 1e-14
Identities = 28/127 (22%), Positives = 47/127 (37%), Gaps = 5/127 (3%)
Query: 217 ETSGSMYISGPPGTGKSASLNLLVSRAEIKDAFKTIYINCNSVRNAASVYETIVNELKLK 276
+G ++G G+GK+ L L + + +Y+ S+ + I+ L L
Sbjct: 2 RGAGIGVLTGESGSGKTTLLRRLARQL---PNRRVVYVEAPSLGTPKDLLRKILRALGLP 58
Query: 277 PGGKSERHQLGAILKYFDTKHKSILLILDEIDALESRKQTILYTIFEWPSIPGSKLVLVG 336
G + L AIL LLI+DE L L +++ ++LVG
Sbjct: 59 LSGGTTAELLEAILDALKR-RGRPLLIIDEAQHLSLEALEELRDLYDLSEKGIQ-VILVG 116
Query: 337 VANALDL 343
L
Sbjct: 117 TPELRKL 123
>gnl|CDD|215649 pfam00004, AAA, ATPase family associated with various cellular
activities (AAA). AAA family proteins often perform
chaperone-like functions that assist in the assembly,
operation, or disassembly of protein complexes.
Length = 131
Score = 56.1 bits (136), Expect = 1e-09
Identities = 35/140 (25%), Positives = 59/140 (42%), Gaps = 31/140 (22%)
Query: 222 MYISGPPGTGKSASLNLLVSRAEIKDAFKTIYINCNSVRNAASVYETIVNELKLKPGGKS 281
+ + GPPGTGK+ +L V++ E+ F I I+ + + + K G+S
Sbjct: 1 LLLYGPPGTGKT-TLAKAVAK-ELGAPF--IEISGSELVS--------------KYVGES 42
Query: 282 ERHQLGAILKYFDTKHKSILLILDEIDAL-----------ESRKQTILYTIFEWPSIPGS 330
E+ +L + + ++ I DEIDAL R L T + + S
Sbjct: 43 EK-RLRELFEAAKKLAPCVIFI-DEIDALAGSRGSGGDSESRRVVNQLLTELDGFTSSLS 100
Query: 331 KLVLVGVANALDLTDRMLPR 350
K++++ N D D L R
Sbjct: 101 KVIVIAATNRPDKLDPALLR 120
>gnl|CDD|99707 cd00009, AAA, The AAA+ (ATPases Associated with a wide variety of
cellular Activities) superfamily represents an ancient
group of ATPases belonging to the ASCE (for additional
strand, catalytic E) division of the P-loop NTPase fold.
The ASCE division also includes ABC, RecA-like,
VirD4-like, PilT-like, and SF1/2 helicases. Members of
the AAA+ ATPases function as molecular chaperons, ATPase
subunits of proteases, helicases, or nucleic-acid
stimulated ATPases. The AAA+ proteins contain several
distinct features in addition to the conserved
alpha-beta-alpha core domain structure and the Walker A
and B motifs of the P-loop NTPases.
Length = 151
Score = 55.6 bits (134), Expect = 3e-09
Identities = 30/155 (19%), Positives = 55/155 (35%), Gaps = 19/155 (12%)
Query: 201 VQLEGIRQFLLGHVNNETSGSMYISGPPGTGKSASLNLLVSRAEIKDAFKTIYINCNSVR 260
V E + L + ++ + GPPGTGK+ + + +Y+N + +
Sbjct: 1 VGQEEAIEALREALELPPPKNLLLYGPPGTGKTTLARAIANELFRPG-APFLYLNASDLL 59
Query: 261 NAASVYETIVNELKLKPGGKSERHQLGAILKYFDTKHKSILLILDEIDALESRKQT---- 316
V E + L +E+ + G +L +DEID+L Q
Sbjct: 60 EGLVVAELFGHFLVRLLFELAEKAKPG-------------VLFIDEIDSLSRGAQNALLR 106
Query: 317 ILYTIFEWPSIPGSKLVLVGVANALDLTDRMLPRL 351
+L T+ + + ++G N L D
Sbjct: 107 VLETLNDLRIDRE-NVRVIGATNRPLLGDLDRALY 140
>gnl|CDD|214640 smart00382, AAA, ATPases associated with a variety of cellular
activities. AAA - ATPases associated with a variety of
cellular activities. This profile/alignment only detects
a fraction of this vast family. The poorly conserved
N-terminal helix is missing from the alignment.
Length = 148
Score = 53.1 bits (127), Expect = 2e-08
Identities = 31/139 (22%), Positives = 45/139 (32%), Gaps = 8/139 (5%)
Query: 218 TSGSMYISGPPGTGKSASLNLLVSRAEIKDAFKTIYINCNSVRNAASVYETIVNELKLKP 277
+ I GPPG+GK+ L +R IYI+ + ++ K
Sbjct: 1 PGEVILIVGPPGSGKTTLARAL-ARELGPPGGGVIYIDGEDILEEVLDQLLLIIVGGKKA 59
Query: 278 GGKSERHQLGAILKYFDTKHKSILLILDEIDALESRKQTILY-----TIFEWPSIPGSKL 332
G E A+ K K +LILDEI +L +Q L L
Sbjct: 60 SGSGELRLRLALALAR--KLKPDVLILDEITSLLDAEQEALLLLLEELRLLLLLKSEKNL 117
Query: 333 VLVGVANALDLTDRMLPRL 351
++ N L R
Sbjct: 118 TVILTTNDEKDLGPALLRR 136
>gnl|CDD|221970 pfam13191, AAA_16, AAA ATPase domain. This family of domains
contain a P-loop motif that is characteristic of the AAA
superfamily.
Length = 154
Score = 52.6 bits (126), Expect = 3e-08
Identities = 26/158 (16%), Positives = 55/158 (34%), Gaps = 21/158 (13%)
Query: 195 ELPGREVQLEGIRQFLLGHVNNETSGSMYISGPPGTGKSASLNLLVSRAEIKDAFKTIYI 254
L GRE +LE + L + S+ ++GP GTGK++ L L+ A K
Sbjct: 1 RLVGREEELERLLD-ALRRARSGGPPSVLLTGPSGTGKTSLLRELLEGLL-VAAGKCDQA 58
Query: 255 NCNSVRNAASVYETIVNELKLKPGGKSERHQLGAILKYFD-----------------TKH 297
N + ++ +L + + + + +
Sbjct: 59 ERNPPYAFSQALRELLRQLLRELAAELLLLREALLAALGAELIEGLQDLVELLERLLARA 118
Query: 298 KSILLILDEIDALESRKQTILYTIFEWPSIPGSKLVLV 335
+ ++L+LD++ + +L + L++V
Sbjct: 119 RPLVLVLDDLQWADEESLDLLAALLRRL--ERLPLLVV 154
>gnl|CDD|214692 smart00487, DEXDc, DEAD-like helicases superfamily.
Length = 201
Score = 39.4 bits (92), Expect = 0.001
Identities = 33/163 (20%), Positives = 54/163 (33%), Gaps = 32/163 (19%)
Query: 199 REVQLEGIRQFLLGHVNNETSGSMYISGPPGTGKS-ASLNLLVSRAEIKDAFKTIYINCN 257
R Q E I L G + ++ P G+GK+ A+L + + + + +
Sbjct: 10 RPYQKEAIEALLSGL------RDVILAAPTGSGKTLAALLPALEALKRGKGGRVLVLVPT 63
Query: 258 S--VRNAASVYETIVNELKLKP----GGKSERHQL---------------GAILKYFDTK 296
A + + L LK GG S+R QL G +L +
Sbjct: 64 RELAEQWAEELKKLGPSLGLKVVGLYGGDSKREQLRKLESGKTDILVTTPGRLLDLLEND 123
Query: 297 HKSI----LLILDEIDALESRKQTILYTIFEWPSIPGSKLVLV 335
S+ L+ILDE L +L+L+
Sbjct: 124 KLSLSNVDLVILDEAHRLLDGGFGDQLEKLLKLLPKNVQLLLL 166
>gnl|CDD|225165 COG2256, MGS1, ATPase related to the helicase subunit of the
Holliday junction resolvase [DNA replication,
recombination, and repair].
Length = 436
Score = 39.1 bits (92), Expect = 0.004
Identities = 52/259 (20%), Positives = 96/259 (37%), Gaps = 73/259 (28%)
Query: 220 GSMYISGPPGTGKSASLNLLVSRAEIKDAFKTIYINCNSVRNAASVYETIVNELKLKPGG 279
SM + GPPGTGK+ +L L++ AF+ + + V++ + E L
Sbjct: 49 HSMILWGPPGTGKT-TLARLIAG-TTNAAFEALSAVTSGVKDLREIIEEARKNRLLG--- 103
Query: 280 KSERHQLGAILKYFDTKHKSILLILDEIDALESRKQTILYTIFEWPSIPGSKLVLVG--- 336
+ +L LDEI +Q L P + ++L+G
Sbjct: 104 ------------------RRTILFLDEIHRFNKAQQDALL-----PHVENGTIILIGATT 140
Query: 337 ------VANALDLTDRMLPRLQANVTLQPTLMNFAPYSREQILEIISQKLKQTDKFNM-- 388
+ AL L R + + P S E I +++ + L ++ +
Sbjct: 141 ENPSFELNPAL------LSRAR--------VFELKPLSSEDIKKLLKRAL-LDEERGLGG 185
Query: 389 ----FNASALQLLAGKVAAVSGDIRKAIDITNHLIDLTYDNVKENGEVTGIGLKEVLGVI 444
+ AL L V +GD R+A++ L++L + + + + L+E+L
Sbjct: 186 QIIVLDEEALDYL---VRLSNGDARRALN----LLELAALSAEPDEVLILELLEEILQRR 238
Query: 445 SSVYCTSQSLHCSKDEDSF 463
S+ + KD D+
Sbjct: 239 SARF--------DKDGDAH 249
>gnl|CDD|215130 PLN02217, PLN02217, probable pectinesterase/pectinesterase
inhibitor.
Length = 670
Score = 35.8 bits (82), Expect = 0.056
Identities = 28/98 (28%), Positives = 41/98 (41%), Gaps = 1/98 (1%)
Query: 31 TPKSQRPNTCRTPTSHQPITPKTPSTLLSDLHLGSPRTPSSLLRSLKLDSPKRKIDTA-L 89
TP ++ T +S P T PST HLGSP S + S P + +
Sbjct: 572 TPTGSAASSNTTFSSDSPSTVVAPSTSPPAGHLGSPPATPSKIVSPSTSPPASHLGSPST 631
Query: 90 EFASPKRVFKDADATSSGAASAVDATSTSDAVRSVSGS 127
+SP+ K A ++ S++ ST +V VS S
Sbjct: 632 TPSSPESSIKVASTETASPESSIKVASTESSVSMVSMS 669
>gnl|CDD|221955 pfam13173, AAA_14, AAA domain. This family of domains contain a
P-loop motif that is characteristic of the AAA
superfamily.
Length = 127
Score = 33.7 bits (78), Expect = 0.056
Identities = 21/85 (24%), Positives = 29/85 (34%), Gaps = 23/85 (27%)
Query: 224 ISGPPGTGKSASLNLLVSRAEIKDAFKTIYINCNSVRNAASVYETIVNE-LKLKPGGKSE 282
I+GP GK+ L + + +YIN + R ++ E LKL GK
Sbjct: 7 ITGPRQVGKTTLLLQFLKELLSE---NILYINLDDPRFLRLALLDLLEEFLKLLLPGKK- 62
Query: 283 RHQLGAILKYFDTKHKSILLILDEI 307
L LDEI
Sbjct: 63 ------------------YLFLDEI 69
>gnl|CDD|185628 PTZ00449, PTZ00449, 104 kDa microneme/rhoptry antigen; Provisional.
Length = 943
Score = 35.4 bits (81), Expect = 0.081
Identities = 31/144 (21%), Positives = 48/144 (33%), Gaps = 9/144 (6%)
Query: 4 HPNEPITTVEEVPRSPRVTRSCSQLPQTPKSQRPNTCRTPTS-HQPITPKTPSTLLSDLH 62
HP +P E P+ P+ RS + + + P P S +P +PK+P
Sbjct: 587 HPKDP-----EEPKKPKRPRSAQRPTRPKSPKLPELLDIPKSPKRPESPKSPKRPPPPQR 641
Query: 63 LGSPRTPSS--LLRSLKL-DSPKRKIDTALEFASPKRVFKDADATSSGAASAVDATSTSD 119
SP P +++S K SPK D + A + + V S
Sbjct: 642 PSSPERPEGPKIIKSPKPPKSPKPPFDPKFKEKFYDDYLDAAAKSKETKTTVVLDESFES 701
Query: 120 AVRSVSGSRSSAKADCLRPLSPIK 143
++ RPL P
Sbjct: 702 ILKETLPETPGTPFTTPRPLPPKL 725
Score = 30.4 bits (68), Expect = 2.6
Identities = 22/83 (26%), Positives = 35/83 (42%), Gaps = 5/83 (6%)
Query: 4 HPNEPITTVEEVPRSPRVTRSCSQLPQTPKSQRPNTCRTPTSHQPITPKTPSTL---LSD 60
H I T+ + P P+ + + K +RP + + PT P +PK P L S
Sbjct: 567 HKPSKIPTLSKKPEFPKDPKHPKDPEEPKKPKRPRSAQRPTR--PKSPKLPELLDIPKSP 624
Query: 61 LHLGSPRTPSSLLRSLKLDSPKR 83
SP++P + SP+R
Sbjct: 625 KRPESPKSPKRPPPPQRPSSPER 647
>gnl|CDD|233191 TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger. [Transport and
binding proteins, Cations and iron carrying compounds].
Length = 1096
Score = 34.2 bits (78), Expect = 0.16
Identities = 23/84 (27%), Positives = 38/84 (45%), Gaps = 10/84 (11%)
Query: 10 TTVEEVPRS----PRVTRSCSQLPQTPKSQRPNTCR------TPTSHQPITPKTPSTLLS 59
+T +PRS PR T S++ T K N + TPT + +T TP+ L
Sbjct: 205 STFMTMPRSHGITPRTTVKDSEITATYKMLETNPSKRTAGKTTPTPLKGMTDNTPTFLTR 264
Query: 60 DLHLGSPRTPSSLLRSLKLDSPKR 83
++ +P S++ L +P+R
Sbjct: 265 EVETDLLTSPRSVVEKNTLTTPRR 288
>gnl|CDD|219538 pfam07728, AAA_5, AAA domain (dynein-related subfamily). This Pfam
entry includes some of the AAA proteins not detected by
the pfam00004 model.
Length = 135
Score = 32.7 bits (75), Expect = 0.17
Identities = 32/140 (22%), Positives = 50/140 (35%), Gaps = 26/140 (18%)
Query: 226 GPPGTGKSASLNLLVSR-AEIKDAFKTIYINCNSVRNAASVYETIVNELKLKPGGKSERH 284
GPPGTGKS L R A Y+ + E + + PGG S
Sbjct: 6 GPPGTGKS----ELAERLAAALSNRPVFYVQL----TRDTTEEDLKGRRNIDPGGAS--W 55
Query: 285 QLGAILKYFDTKHKSILLILDEIDALESRKQTILYTIFE---WPSIPGSKLV-------- 333
G +++ + +LDEI+ L ++ + G +LV
Sbjct: 56 VDGPLVRAAREGE---IAVLDEINRANPDVLNSLLSLLDERRLLLPEGGELVKAAPDGFR 112
Query: 334 LVGVANALD-LTDRMLPRLQ 352
L+ N LD + + P L+
Sbjct: 113 LIATMNPLDRGLNELSPALR 132
>gnl|CDD|222258 pfam13604, AAA_30, AAA domain. This family of domains contain a
P-loop motif that is characteristic of the AAA
superfamily. Many of the proteins in this family are
conjugative transfer proteins. There is a Walker A and
Walker B.
Length = 195
Score = 32.9 bits (76), Expect = 0.22
Identities = 15/41 (36%), Positives = 18/41 (43%), Gaps = 9/41 (21%)
Query: 202 QLEGIRQFLLGHVNNETSGSMY--ISGPPGTGKSASLNLLV 240
Q E +R L TSG + GP GTGK+ SL
Sbjct: 6 QREAVRHVL-------TSGDRVAVVQGPAGTGKTTSLKAAR 39
>gnl|CDD|221803 pfam12846, AAA_10, AAA-like domain. This family of domains contain
a P-loop motif that is characteristic of the AAA
superfamily. Many of the proteins in this family are
conjugative transfer proteins.
Length = 316
Score = 33.6 bits (77), Expect = 0.23
Identities = 12/31 (38%), Positives = 16/31 (51%)
Query: 219 SGSMYISGPPGTGKSASLNLLVSRAEIKDAF 249
+ +M I GP G+GKS L LL R +
Sbjct: 1 NPNMLIVGPSGSGKSTLLKLLALRLLARGGR 31
>gnl|CDD|224401 COG1484, DnaC, DNA replication protein [DNA replication,
recombination, and repair].
Length = 254
Score = 32.8 bits (75), Expect = 0.28
Identities = 24/119 (20%), Positives = 43/119 (36%), Gaps = 21/119 (17%)
Query: 193 SCELPGREVQLEGIRQFLLGHV----NNETSGSMYISGPPGTGKSASLNLLVSRAEIKDA 248
+ E E Q ++ L E ++ + GPPG GK+ + + +K
Sbjct: 75 TFEEFDFEFQPGIDKKALEDLASLVEFFERGENLVLLGPPGVGKTHLAIAIGNEL-LKAG 133
Query: 249 FKTIYINCNSVRNAASVYETIVNELKLKPGGKSERHQLGAILKYFDTKHKSILLILDEI 307
++I + + KLK R + +L+ K LLI+D+I
Sbjct: 134 ISVLFITAPDLLS------------KLKAAFDEGRLE-EKLLRELK---KVDLLIIDDI 176
>gnl|CDD|233328 TIGR01243, CDC48, AAA family ATPase, CDC48 subfamily. This
subfamily of the AAA family ATPases includes two members
each from three archaeal species. It also includes yeast
CDC48 (cell division control protein 48) and the human
ortholog, transitional endoplasmic reticulum ATPase
(valosin-containing protein). These proteins in
eukaryotes are involved in the budding and transfer of
membrane from the transitional endoplasmic reticulum to
the Golgi apparatus.
Length = 733
Score = 32.6 bits (74), Expect = 0.51
Identities = 38/132 (28%), Positives = 60/132 (45%), Gaps = 31/132 (23%)
Query: 188 EKAKDSCELPGREVQLEGIRQFLLGHVNNETSGSMYISGPPGTGKSASLNLLVSRAEIKD 247
EK ++ ELP + +L H+ E + + GPPGTGK+ L+++A
Sbjct: 188 EKIREMVELPMKHPEL-------FEHLGIEPPKGVLLYGPPGTGKT-----LLAKA---- 231
Query: 248 AFKTIYINCNSVRNAASVYETIVN--ELKLKPGGKSERHQLGAILKYFDTKHKSILLILD 305
V N A Y +N E+ K G+SE +L I K + SI+ I D
Sbjct: 232 -----------VANEAGAYFISINGPEIMSKYYGESEE-RLREIFKEAEENAPSIIFI-D 278
Query: 306 EIDALESRKQTI 317
EIDA+ +++ +
Sbjct: 279 EIDAIAPKREEV 290
>gnl|CDD|213194 cd03227, ABC_Class2, ATP-binding cassette domain of non-transporter
proteins. ABC-type Class 2 contains systems involved in
cellular processes other than transport. These families
are characterized by the fact that the ABC subunit is
made up of duplicated, fused ABC modules (ABC2). No
known transmembrane proteins or domains are associated
with these proteins.
Length = 162
Score = 31.2 bits (71), Expect = 0.65
Identities = 34/106 (32%), Positives = 43/106 (40%), Gaps = 11/106 (10%)
Query: 224 ISGPPGTGKSASLN----LLVSRAEIKDAFKTIYINCNSVRNAASVYETIVNELKLKPGG 279
I+GP G+GKS L+ L + C AA E I L+L GG
Sbjct: 26 ITGPNGSGKSTILDAIGLALGGAQSATRRRSGVKAGCIV---AAVSAELIFTRLQLS-GG 81
Query: 280 KSERHQLGAILKYFDTKHKSILLILDEIDA-LESRK-QTILYTIFE 323
+ E L IL + L ILDEID L+ R Q + I E
Sbjct: 82 EKELSALALILA-LASLKPRPLYILDEIDRGLDPRDGQALAEAILE 126
>gnl|CDD|220440 pfam09848, DUF2075, Uncharacterized conserved protein (DUF2075).
This domain, found in various prokaryotic proteins
(including putative ATP/GTP binding proteins), has no
known function.
Length = 348
Score = 31.8 bits (73), Expect = 0.72
Identities = 18/88 (20%), Positives = 37/88 (42%), Gaps = 11/88 (12%)
Query: 224 ISGPPGTGKSASLNLLVSRAEIKDAFKT-IYINCNSVRNAA---SVYETIVNELKLKPGG 279
++G PGTGK+ L + D +T +++ N +YE + +LK++
Sbjct: 6 VTGGPGTGKTVVALNLFAELSDSDLGRTAVFL----SGNHPLVLVLYEALAGDLKVRK-- 59
Query: 280 KSERHQLGAILKYFDTKHKSI-LLILDE 306
K + + + ++I+DE
Sbjct: 60 KKLFRKPTSFINNLHKAPPHEDVVIVDE 87
>gnl|CDD|178596 PLN03025, PLN03025, replication factor C subunit; Provisional.
Length = 319
Score = 31.6 bits (72), Expect = 0.79
Identities = 28/103 (27%), Positives = 46/103 (44%), Gaps = 30/103 (29%)
Query: 224 ISGPPGTGKSASLNLLVSRAEIKDAFKTIYINCNS--------VRNAASVYETIVNELKL 275
+SGPPGTGK+ S+ L ++ + +K + N+ VRN ++ ++ L
Sbjct: 39 LSGPPGTGKTTSI-LALAHELLGPNYKEAVLELNASDDRGIDVVRNKIKMFAQ--KKVTL 95
Query: 276 KPGGKSERHQLGAILKYFDTKHKSILLILDEIDALESRKQTIL 318
PG +HK ++ILDE D++ S Q L
Sbjct: 96 PPG-----------------RHK--IVILDEADSMTSGAQQAL 119
>gnl|CDD|216619 pfam01637, Arch_ATPase, Archaeal ATPase. This family contain a
conserved P-loop motif that is involved in binding ATP.
This family is almost exclusively found in
archaebacteria and particularly in Methanococcus
jannaschii that encodes sixteen members of this family.
Length = 223
Score = 30.7 bits (70), Expect = 1.3
Identities = 22/120 (18%), Positives = 41/120 (34%), Gaps = 18/120 (15%)
Query: 199 REVQLEGIRQFLLGHVNNETSGSMY-ISGPPGTGKSASLNLLVSRAEIKDAFKTIYINCN 257
RE +L+ + + + + GP GK+A L + ++ IY +
Sbjct: 4 REKELKELE-----EWAERGTYPIIVVYGPRRCGKTALLREFLEELRELG-YRVIYYDPL 57
Query: 258 SVRNAASV---------YETIVNELKLKPGGKSERHQ--LGAILKYFDTKHKSILLILDE 306
+ E + + L KS+ L + + K K I +I+DE
Sbjct: 58 RREFEEKLDRFEEAKRLAEALGDALPKIGIAKSKLAFLSLTLLFELLKRKGKKIAIIIDE 117
>gnl|CDD|233994 TIGR02746, TraC-F-type, type-IV secretion system protein TraC. The
protein family described here is common among the F, P
and I-like type IV secretion systems. Gene symbols
include TraC (F-type), TrbE/VirB4 (P-type) and TraU
(I-type). The protein conyains the Walker A and B motifs
and so is a putative nucleotide triphosphatase.
Length = 797
Score = 31.5 bits (72), Expect = 1.3
Identities = 21/79 (26%), Positives = 31/79 (39%), Gaps = 7/79 (8%)
Query: 139 LSPIKNIILDKKSPFKAF----IRDDEDLIKRSPAKLCSPRKLLFSEDKPKVEEKAKDSC 194
SP NI L+ PF I D+ D I A + SP L E + +EE +
Sbjct: 484 FSPESNICLN---PFTGNNVTEIDDEIDQITALIALMASPEGGLSDEQRSTLEEAILAAW 540
Query: 195 ELPGREVQLEGIRQFLLGH 213
+ G E + ++ L
Sbjct: 541 KEYGNEATITDVQDALQQL 559
>gnl|CDD|227922 COG5635, COG5635, Predicted NTPase (NACHT family) [Signal
transduction mechanisms].
Length = 824
Score = 30.9 bits (70), Expect = 1.7
Identities = 29/129 (22%), Positives = 56/129 (43%), Gaps = 16/129 (12%)
Query: 217 ETSGSMYISGPPGTGKSASLN-LLVSRAE--IKDAFKTIYINCNSVRNAA------SVYE 267
E + I G PG+GK+ L L + A+ ++ I++ N+ A S+ +
Sbjct: 220 EKYAKLLILGAPGSGKTTFLQRLALWLAQRTLEPEDVPIFLLLNAFALARKFEKQLSLID 279
Query: 268 TIVNELKLKPGGKSERHQLGAILKYFDTKHKSILLILDEIDALE-SRKQTILYTI-FEWP 325
+ EL + K + A + T +LL+LD +D LE ++ ++ I
Sbjct: 280 YLAEELFSQGIAKQL---IEAHQELLKTGK--LLLLLDGLDELEPKNQRALIREINKFLQ 334
Query: 326 SIPGSKLVL 334
P ++++L
Sbjct: 335 EYPDAQVLL 343
>gnl|CDD|218107 pfam04484, DUF566, Family of unknown function (DUF566). Family of
related proteins that is plant specific.
Length = 313
Score = 30.7 bits (69), Expect = 1.7
Identities = 33/131 (25%), Positives = 47/131 (35%), Gaps = 15/131 (11%)
Query: 11 TVEEVPRSPRVTRSCSQLPQTPKSQRPNTCRTPTSHQPITPKTPSTLLSDLHLGSPRTPS 70
PRS R S T S RP P S +P ++ S L S + PS
Sbjct: 12 GDASSPRSSSRRRLSSSFLSTSASSRPRRLNAPASPPSSSPARNTSSSSSFGL-SKQRPS 70
Query: 71 SLLRSLKLDSPKRKIDTALEFASPKRVFKDADATSSGAASAVDATSTSDAVRSVSGSRSS 130
SL R R F SP R +++ + + AT+++ S S SR +
Sbjct: 71 SLSRGR---LSSR-------FVSPSR----GSPSAAASLNGSLATASTSGSSSPSRSRRT 116
Query: 131 AKADCLRPLSP 141
+D P
Sbjct: 117 TSSDLSSGNGP 127
>gnl|CDD|163643 cd07400, MPP_YydB, Bacillus subtilis YydB and related proteins,
metallophosphatase domain. YydB (BSU40220) is an
uncharacterized Bacillus subtilis protein that belongs
to the following Bacillus subtilis gene cluster
yydB-yydC-yydD-yydG-yydH-yydI-yydJ. YydB belongs to
the metallophosphatase (MPP) superfamily. MPPs are
functionally diverse, but all share a conserved domain
with an active site consisting of two metal ions
(usually manganese, iron, or zinc) coordinated with
octahedral geometry by a cage of histidine, aspartate,
and asparagine residues. The MPP superfamily includes:
Mre11/SbcD-like exonucleases, Dbr1-like RNA lariat
debranching enzymes, YfcE-like phosphodiesterases,
purple acid phosphatases (PAPs), YbbF-like
UDP-2,3-diacylglucosamine hydrolases, and acid
sphingomyelinases (ASMases). The conserved domain is a
double beta-sheet sandwich with a di-metal active site
made up of residues located at the C-terminal side of
the sheets. This domain is thought to allow for
productive metal coordination.
Length = 144
Score = 29.3 bits (66), Expect = 2.5
Identities = 12/28 (42%), Positives = 13/28 (46%)
Query: 58 LSDLHLGSPRTPSSLLRSLKLDSPKRKI 85
LSDLH G R P L LD +I
Sbjct: 4 LSDLHFGPERKPELLALLSLLDRLLAEI 31
>gnl|CDD|216747 pfam01865, PhoU_div, Protein of unknown function DUF47. This
family includes prokaryotic proteins of unknown
function, as well as a protein annotated as the pit
accessory protein from Sinorhizobium meliloti. However,
the function of this protein is also unknown (Pit stands
for Phosphate transport). It is probably distantly
related to pfam01895 (personal obs:Yeats C).
Length = 214
Score = 29.6 bits (67), Expect = 2.6
Identities = 40/196 (20%), Positives = 73/196 (37%), Gaps = 41/196 (20%)
Query: 145 IILDKKSPFKAFIRDDEDLIKRSPAKLCSPRKLLFSEDKPKVEEKAKDSCELPGREVQLE 204
+ L KSP K I E + + KL + L D +VEE K+ EL E + +
Sbjct: 2 LFLFGKSPEKPLIDHLEKVS-ETVMKLIELFEALIRGDYERVEELLKEISEL---EREAD 57
Query: 205 GIRQFLLGHVNNETSGSMYISGPPGTGKSASLNLLVSRAEIKDAFKTIYINCNSVRNAAS 264
I++ + ++ TSG+ L V R ++ + ++ ++ + A
Sbjct: 58 EIKREIRLNL---TSGAF---------------LPVDRGDLLELIESQDKIADAAEDIAK 99
Query: 265 VY----ETIVNELK------LKPGGKSERHQLGAIL---KYFDTKHKSILLIL------D 305
+ + E K LK K+ AI + + + +I D
Sbjct: 100 LLTLRKFSFPEEFKDEFLAMLKKTVKAAHLLAEAIEELERLLEGAFRGKDIIKEIEHLED 159
Query: 306 EIDALESRKQTILYTI 321
EID L+ + L++
Sbjct: 160 EIDQLQIKLLKKLFSR 175
>gnl|CDD|176573 cd08768, Cdc6_C, Winged-helix domain of essential DNA replication
protein Cell division control protein (Cdc6), which
mediates DNA binding. This model characterizes the
winged-helix, C-terminal domain of the Cell division
control protein (Cdc6_C). Cdc6 (also known as Cell
division cycle 6 or Cdc18) functions as a regulator at
the early stages of DNA replication, by helping to
recruit and load the Minichromosome Maintenance Complex
(MCM) onto DNA and may have additional roles in the
control of mitotic entry. Precise duplication of
chromosomal DNA is required for genomic stability during
replication. Cdc6 has an essential role in DNA
replication and irregular expression of Cdc6 may lead to
genomic instability. Cdc6 over-expression is observed in
many cancerous lesions. DNA replication begins when an
origin recognition complex (ORC) binds to a replication
origin site on the chromatin. Studies indicate that Cdc6
interacts with ORC through the Orc1 subunit, and that
this association increases the specificity of the
ORC-origins interaction. Further studies suggest that
hydrolysis of Cdc6-bound ATP promotes the association of
the replication licensing factor Cdt1 with origins
through an interaction with Orc6 and this in turn
promotes the loading of MCM2-7 helicase onto chromatin.
The MCM2-7 complex promotes the unwinding of DNA
origins, and the binding of additional factors to
initiate the DNA replication. S-Cdk (S-phase cyclin and
cyclin-dependent kinase complex) prevents rereplication
by causing the Cdc6 protein to dissociate from ORC and
prevents the Cdc6 and MCM proteins from reassembling at
any origin. By phosphorylating Cdc6, S-Cdk also triggers
Cdc6's ubiquitination. The Cdc6 protein is composed of
three domains, an N-terminal AAA+ domain with Walker A
and B, and Sensor-1 and -2 motifs. The central region
contains a conserved nucleotide binding/ATPase domain
and is a member of the ATPase superfamily. The
C-terminal domain (Cdc6_C) is a conserved winged-helix
domain that possibly mediates protein-protein
interactions or direct DNA interactions. Cdc6 is
conserved in eukaryotes, and related genes are found in
Archaea. The winged helix fold structure of Cdc6_C is
similar to the structures of other eukaryotic
replication initiators without apparent sequence
similarity.
Length = 87
Score = 28.0 bits (63), Expect = 3.1
Identities = 13/27 (48%), Positives = 17/27 (62%)
Query: 464 PLQQKLALASLLLLKSRPNVKDVTLGK 490
PL QKL L +LLLL R ++ T G+
Sbjct: 1 PLHQKLVLLALLLLFKRGGEEEATTGE 27
>gnl|CDD|223021 PHA03247, PHA03247, large tegument protein UL36; Provisional.
Length = 3151
Score = 29.9 bits (67), Expect = 3.8
Identities = 20/129 (15%), Positives = 38/129 (29%), Gaps = 5/129 (3%)
Query: 14 EVPRSPRVTRSCSQLPQTPKSQRPNTCRTPTSHQPITPKTPSTLLSDLHLGSPRTPSSLL 73
P S P P P P P+ + G P P+
Sbjct: 2705 PPTPEPAPHALVSATPLPPGPAAARQASPALPAAPAPPAVPAGPATP---GGPARPARPP 2761
Query: 74 RSLKLDSPKRKIDTALEFASPKRVFKDADATSSGAASAVDATSTSDAVRSVSGSRSSAKA 133
+ +P A P+R+ + A A+ S + ++ + + + ++A
Sbjct: 2762 TTAGPPAPAPPAAPAA--GPPRRLTRPAVASLSESRESLPSPWDPADPPAAVLAPAAALP 2819
Query: 134 DCLRPLSPI 142
P P+
Sbjct: 2820 PAASPAGPL 2828
Score = 28.8 bits (64), Expect = 8.4
Identities = 25/121 (20%), Positives = 42/121 (34%), Gaps = 11/121 (9%)
Query: 7 EPITTVEEVPRS---PRVTRSCSQLPQTPKSQRPNTCRTPTSHQPITPKTPSTLLSDLHL 63
E ++ P+ P R ++ TP ++ P P+ P+ + +
Sbjct: 366 EDLSAGRHHPKRASLPTRKRRSARHAATPFARGPGGDDQTRPAAPVPASVPTPAPTPVPA 425
Query: 64 GSPRTPSSLLRSLKLDSPKRKIDTALEFASPKRVFKDADATSSGAASAVDATSTS-DAVR 122
+P P++ L S + S A P A AT DAT + DA+R
Sbjct: 426 SAPPPPATPLPSAEPGSDDGP-------APPPERQPPAPATEPAPDDPDDATRKALDALR 478
Query: 123 S 123
Sbjct: 479 E 479
>gnl|CDD|215634 PLN03211, PLN03211, ABC transporter G-25; Provisional.
Length = 659
Score = 29.8 bits (67), Expect = 3.9
Identities = 27/119 (22%), Positives = 36/119 (30%), Gaps = 22/119 (18%)
Query: 159 DDEDLIKRSPAKLCSPRKLLFSEDKP------------KVEEKAKDSCE----LPGREVQ 202
D D K LL S P K E L +
Sbjct: 12 DGPDRSKPPSQDSRDLPSLLLSSCYPITLKFMDVCYRVKFENMKNKGSNIKRILGHKPKI 71
Query: 203 LEGIRQFLLGHVNNETSGS------MYISGPPGTGKSASLNLLVSRAEIKDAFKTIYIN 255
+ RQ + N +G + + GP G+GKS LN L R + + TI N
Sbjct: 72 SDETRQIQERTILNGVTGMASPGEILAVLGPSGSGKSTLLNALAGRIQGNNFTGTILAN 130
>gnl|CDD|221188 pfam11725, AvrE, Pathogenicity factor. This family is secreted by
gram-negative Gammaproteobacteria such as Pseudomonas
syringae of tomato and the fire blight plant pathogen
Erwinia amylovora, amongst others. It is an essential
pathogenicity factor of approximately 198 kDa. Its
injection into the host-plant is dependent upon the
bacterial type III or Hrp secretion system. The family
is long and carries a number of predicted functional
regions, including an ERMS or endoplasmic reticulum
membrane retention signal at both the C- and the
N-termini, a leucine-zipper motif from residues 539-560,
and a nuclear localisation signal at 1358-1361. this
conserved AvrE-family of effectors is among the few that
are required for full virulence of many phytopathogenic
pseudomonads, erwinias and pantoeas.
Length = 1771
Score = 29.7 bits (67), Expect = 4.7
Identities = 31/136 (22%), Positives = 51/136 (37%), Gaps = 16/136 (11%)
Query: 17 RSPRVTRSCSQLPQTPKSQRPNTCRTPTSHQPITPKTPSTLLSDLHLGSPRTPSSLLRSL 76
R + QL Q ++ ++ R P S + T P T +
Sbjct: 132 RPVVKPDADRQLRQDILNKSSSSRRPPVSKEEGTSSK-----------MPATALASAALF 180
Query: 77 KLDSPKRKIDTA-LEFASPKRVFKDADATSSGAASAVDATSTSDAVRSVSGSRSSAKADC 135
K D ++++D A + AS R+ + + + A DA + +G R + +
Sbjct: 181 KDDEIRQEVDAARSDQASQSRL---SRSRGNPPAIPPDAAPRQPMLTRSAGGRFEGEDEN 237
Query: 136 L-RPLSPIKNIILDKK 150
L R L P I LDKK
Sbjct: 238 LERNLQPQSPITLDKK 253
>gnl|CDD|222000 pfam13238, AAA_18, AAA domain.
Length = 128
Score = 28.2 bits (63), Expect = 4.9
Identities = 10/34 (29%), Positives = 16/34 (47%), Gaps = 2/34 (5%)
Query: 223 YISGPPGTGKSASLNLLVSR--AEIKDAFKTIYI 254
I+G PG+GK+ L R ++D K +
Sbjct: 2 LITGTPGSGKTTLAKELAERLGDVLRDLAKENGL 35
>gnl|CDD|238005 cd00046, DEXDc, DEAD-like helicases superfamily. A diverse family
of proteins involved in ATP-dependent RNA or DNA
unwinding. This domain contains the ATP-binding region.
Length = 144
Score = 28.5 bits (64), Expect = 5.2
Identities = 22/110 (20%), Positives = 38/110 (34%), Gaps = 26/110 (23%)
Query: 224 ISGPPGTGKS-ASLNLLVSRAEIKDAFKTIYINCNSVRNAASVYETIVNELKLKP----- 277
++ P G+GK+ A+L ++ + + + + A V E +
Sbjct: 5 LAAPTGSGKTLAALLPILELLDSLKGGQVLVLAPTREL-ANQVAERLKELFGEGIKVGYL 63
Query: 278 -GGKSERHQL--------------GAILKYFDTKHKSI----LLILDEID 308
GG S + Q G +L + S+ LLILDE
Sbjct: 64 IGGTSIKQQEKLLSGKTDIVVGTPGRLLDELERLKLSLKKLDLLILDEAH 113
>gnl|CDD|216186 pfam00910, RNA_helicase, RNA helicase. This family includes RNA
helicases thought to be involved in duplex unwinding
during viral RNA replication. Members of this family are
found in a variety of single stranded RNA viruses.
Length = 105
Score = 27.6 bits (62), Expect = 5.4
Identities = 8/20 (40%), Positives = 10/20 (50%)
Query: 223 YISGPPGTGKSASLNLLVSR 242
++ GPPG GKS L
Sbjct: 2 WLYGPPGCGKSTLAKYLARA 21
>gnl|CDD|233418 TIGR01448, recD_rel, helicase, putative, RecD/TraA family. This
model describes a family similar to RecD, the
exodeoxyribonuclease V alpha chain of TIGR01447. Members
of this family, however, are not found in a context of
RecB and RecC and are longer by about 200 amino acids at
the amino end. Chlamydia muridarum has both a member of
this family and a RecD [Unknown function, Enzymes of
unknown specificity].
Length = 720
Score = 29.4 bits (66), Expect = 6.1
Identities = 30/127 (23%), Positives = 46/127 (36%), Gaps = 19/127 (14%)
Query: 222 MYISGPPGTGKSASLNLLVSRAEIKDAFKTIYINCNSVRNAASVYE-------TIVNELK 274
+ ++G PGTGK+ ++ AE + + + R A + E TI L
Sbjct: 341 VILTGGPGTGKTTITRAIIELAEELGGLLPVGLAAPTGRAAKRLGEVTGLTASTIHRLLG 400
Query: 275 LKPGGKSERHQLGAILKYFDTKHKSILLILDEIDALESRKQTILYTIFEWPSIPGSKLVL 334
P H + D LLI+DE S T L ++L+L
Sbjct: 401 YGPDTFRHNH----LEDPIDCD----LLIVDES----SMMDTWLALSLLAALPDHARLLL 448
Query: 335 VGVANAL 341
VG + L
Sbjct: 449 VGDTDQL 455
>gnl|CDD|223703 COG0630, VirB11, Type IV secretory pathway, VirB11 components, and
related ATPases involved in archaeal flagella
biosynthesis [Cell motility and secretion /
Intracellular trafficking and secretion].
Length = 312
Score = 28.9 bits (65), Expect = 6.2
Identities = 11/40 (27%), Positives = 17/40 (42%), Gaps = 2/40 (5%)
Query: 215 NNETSGSMYISGPPGTGKSASLNLLVSRAEIKDAFKTIYI 254
E S+ I G +GK+ LN L+ I + + I
Sbjct: 139 AIEARKSIIICGGTASGKTTLLNALLD--FIPPEERIVTI 176
>gnl|CDD|234203 TIGR03420, DnaA_homol_Hda, DnaA regulatory inactivator Hda.
Members of this protein family are Hda (Homologous to
DnaA). These proteins are about half the length of DnaA
and homologous over length of Hda. In the model species
Escherichia coli, the initiation of DNA replication
requires DnaA bound to ATP rather than ADP; Hda helps
facilitate the conversion of DnaA-ATP to DnaA-ADP [DNA
metabolism, DNA replication, recombination, and repair].
Length = 226
Score = 28.7 bits (65), Expect = 6.3
Identities = 11/35 (31%), Positives = 16/35 (45%), Gaps = 1/35 (2%)
Query: 223 YISGPPGTGKSASLNLLVSRAEIKDAFKTIYINCN 257
Y+ G G+GKS L + AE + IY+
Sbjct: 42 YLWGESGSGKSHLLQAACAAAEERGK-SAIYLPLA 75
>gnl|CDD|131494 TIGR02441, fa_ox_alpha_mit, fatty acid oxidation complex, alpha
subunit, mitochondrial. Members represent alpha subunit
of mitochondrial multifunctional fatty acid degradation
enzyme complex. Subunit activities include: enoyl-CoA
hydratase (EC 4.2.1.17) & 3-hydroxyacyl-CoA
dehydrogenase (EC 1.1.1.35). Some characterization in
human , pig , and rat. The beta subunit has activity:
acetyl-CoA C-acyltransferase (EC 2.3.1.16).
Length = 737
Score = 29.0 bits (65), Expect = 6.4
Identities = 17/44 (38%), Positives = 24/44 (54%), Gaps = 2/44 (4%)
Query: 364 FAPYSREQILEIISQKLKQTDKFNMFNASALQLLAGKVAAVSGD 407
F+P + Q+LEII+ T K + +A A+ L GKV V D
Sbjct: 474 FSPVDKMQLLEIITH--DGTSKDTLASAVAVGLKQGKVVIVVKD 515
>gnl|CDD|225982 COG3451, VirB4, Type IV secretory pathway, VirB4 components
[Intracellular trafficking and secretion].
Length = 796
Score = 29.3 bits (66), Expect = 6.6
Identities = 10/35 (28%), Positives = 17/35 (48%)
Query: 220 GSMYISGPPGTGKSASLNLLVSRAEIKDAFKTIYI 254
G I GP G GK+ L+ L+++A + +
Sbjct: 437 GHTLIIGPTGAGKTVLLSFLLAQALKYGNPQIVAF 471
>gnl|CDD|234340 TIGR03744, traC_PFL_4706, conjugative transfer ATPase, PFL_4706
family. Members of this protein family are predicted
ATP-binding proteins apparently associated with DNA
conjugal transfer. Members are found both in plasmids
and in bacterial chromosomal regions that appear to
derive from integrative elements such as conjugative
transposons. More distant homologs, outside the scope of
this family, include type IV secretion/conjugal transfer
proteins such as TraC, VirB4 and TrsE. The granularity
of this protein family definition is chosen so as to
represent one distinctive clade and act as a marker
through which to define and recognize the class of
mobile element it serves [Mobile and extrachromosomal
element functions, Plasmid functions].
Length = 893
Score = 29.2 bits (66), Expect = 6.6
Identities = 28/108 (25%), Positives = 44/108 (40%), Gaps = 30/108 (27%)
Query: 222 MYISGPPGTGKSASLNLLVS--------RAEIKDAFKTIYINCNS---VRNAASVYETIV 270
+ I GP G GKSA+L L+ R I +A NS + + A+ V
Sbjct: 478 LLILGPTGAGKSATLTNLLMQVMAVHRPRLFIVEA-------GNSFGLLADYAARLGLSV 530
Query: 271 NELKLKPGGK------SERHQLGAILKYFDTKHKSILLILDEIDALES 312
N + LKPG ++ H+L +T L DE++ ++
Sbjct: 531 NRVSLKPGSGVSLPPFADAHRL------LETPEDVKALDADELEEEDA 572
>gnl|CDD|173750 cd07857, STKc_MPK1, Catalytic domain of the Serine/Threonine
Kinase, Fungal Mitogen-Activated Protein Kinase MPK1.
Serine/Threonine Kinases (STKs), Fungal
Mitogen-Activated Protein Kinase (MAPK) MPK1 subfamily,
catalytic (c) domain. STKs catalyze the transfer of the
gamma-phosphoryl group from ATP to serine/threonine
residues on protein substrates. The MPK1 subfamily is
part of a larger superfamily that includes the catalytic
domains of other protein STKs, protein tyrosine kinases,
RIO kinases, aminoglycoside phosphotransferase, choline
kinase, and phosphoinositide 3-kinase. This subfamily is
composed of the MAPKs MPK1 from Saccharomyces
cerevisiae, Pmk1 from Schizosaccharomyces pombe, and
similar proteins. MAPKs are important mediators of
cellular responses to extracellular signals. MPK1 (also
called Slt2) and Pmk1 (also called Spm1) are
stress-activated MAPKs that regulate the cell wall
integrity (CWI) pathway, and are therefore important in
the maintainance of cell shape, cell wall construction,
morphogenesis, and ion homeostasis. MPK1 is activated in
response to cell wall stress including heat stimulation,
osmotic shock, UV irradiation, and any agents that
interfere with cell wall biogenesis such as chitin
antagonists, caffeine, or zymolase. MPK1 is regulated by
the MAP2Ks Mkk1/2, which are regulated by the MAP3K
Bck1. Pmk1 is also activated by multiple stresses
including elevated temperatures, hyper- or hypotonic
stress, glucose deprivation, exposure to cell-wall
damaging compounds, and oxidative stress. It is
regulated by the MAP2K Pek1, which is regulated by the
MAP3K Mkh1.
Length = 332
Score = 28.5 bits (64), Expect = 7.2
Identities = 23/81 (28%), Positives = 31/81 (38%), Gaps = 13/81 (16%)
Query: 273 LKLKP--GGKSERHQLGAILKYFDTKHKSILLILDEIDALESRKQTILYTIFEWPSIPGS 330
L KP GK QL IL+ T + L + A I P+IP
Sbjct: 204 LGRKPVFKGKDYVDQLNQILQVLGTPDEETLSRIGSPKAQN--------YIRSLPNIPKK 255
Query: 331 KLV-LVGVAN--ALDLTDRML 348
+ AN ALDL +++L
Sbjct: 256 PFESIFPNANPLALDLLEKLL 276
>gnl|CDD|215920 pfam00437, T2SE, Type II/IV secretion system protein. This family
contains both type II and type IV pathway secretion
proteins from bacteria. VirB11 ATPase is a subunit of
the Agrobacterium tumefaciens transfer DNA (T-DNA)
transfer system, a type IV secretion pathway required
for delivery of T-DNA and effector proteins to plant
cells during infection.
Length = 273
Score = 28.4 bits (64), Expect = 7.5
Identities = 16/58 (27%), Positives = 25/58 (43%), Gaps = 4/58 (6%)
Query: 195 ELPGREVQLEGIRQFLLGHVNNETSGSMYISGPPGTGKSASLNLLVSRAEIKDAFKTI 252
+L I +FL V G++ +SG G+GK+ L L+ EI + I
Sbjct: 107 DLGMTGAFDADIAEFLRQAVQAR--GNILVSGGTGSGKTTLLYALL--NEINTDDERI 160
>gnl|CDD|191413 pfam05970, PIF1, PIF1-like helicase. This family includes
homologues of the PIF1 helicase, which inhibits
telomerase activity and is cell cycle regulated. This
family includes a large number of largely
uncharacterized plant proteins. This family includes a
P-loop motif that is involved in nucleotide binding.
Length = 364
Score = 28.9 bits (65), Expect = 7.5
Identities = 13/39 (33%), Positives = 19/39 (48%), Gaps = 4/39 (10%)
Query: 211 LGHVNNETSGSMYISGPPGTGKS----ASLNLLVSRAEI 245
+ V+N G ++ G GTGK+ A L SR +I
Sbjct: 14 IESVDNNLGGVFFVYGYGGTGKTYLWKALSASLRSRGKI 52
>gnl|CDD|223271 COG0193, Pth, Peptidyl-tRNA hydrolase [Translation, ribosomal
structure and biogenesis].
Length = 190
Score = 28.3 bits (64), Expect = 7.6
Identities = 8/24 (33%), Positives = 16/24 (66%)
Query: 285 QLGAILKYFDTKHKSILLILDEID 308
+GA+ ++ K + IL++ DE+D
Sbjct: 73 AVGALASFYKIKPEDILVVHDELD 96
>gnl|CDD|213268 cd03301, ABC_MalK_N, The N-terminal ATPase domain of the maltose
transporter, MalK. ATP binding cassette (ABC) proteins
function from bacteria to human, mediating the
translocation of substances into and out of cells or
organelles. ABC transporters contain two
transmembrane-spanning domains (TMDs) or subunits and
two nucleotide binding domains (NBDs) or subunits that
couple transport to the hydrolysis of ATP. In the
maltose transport system, the periplasmic maltose
binding protein (MBP) stimulates the ATPase activity of
the membrane-associated transporter, which consists of
two transmembrane subunits, MalF and MalG, and two
copies of the ATP binding subunit, MalK, and becomes
tightly bound to the transporter in the catalytic
transition state, ensuring that maltose is passed to the
transporter as ATP is hydrolyzed.
Length = 213
Score = 28.4 bits (64), Expect = 7.9
Identities = 21/80 (26%), Positives = 31/80 (38%), Gaps = 21/80 (26%)
Query: 222 MYISGPPGTGKSASLNLLVSRAEIKDAFKTIYINCNSV-------RNAA----------- 263
+ + GP G GK+ +L ++ E IYI V R+ A
Sbjct: 29 VVLLGPSGCGKTTTLRMIAGLEEPTSG--RIYIGGRDVTDLPPKDRDIAMVFQNYALYPH 86
Query: 264 -SVYETIVNELKLKPGGKSE 282
+VY+ I LKL+ K E
Sbjct: 87 MTVYDNIAFGLKLRKVPKDE 106
>gnl|CDD|110677 pfam01695, IstB_IS21, IstB-like ATP binding protein. This protein
contains an ATP/GTP binding P-loop motif. It is found
associated with IS21 family insertion sequences. The
function of this protein is unknown, but it may perform
a transposase function.
Length = 178
Score = 27.6 bits (62), Expect = 9.9
Identities = 22/85 (25%), Positives = 34/85 (40%), Gaps = 20/85 (23%)
Query: 224 ISGPPGTGKSASLNLLVSRAEIKDAFKTIYINCNSVRNAASVYETIVNELKLKPG-GKSE 282
+ GPPG GK+ L +A + + ++ +V +LK G G+
Sbjct: 52 LLGPPGVGKTHLACALGHQA-CRAGYSVLFTRT----------PDLVEQLKRARGDGRLA 100
Query: 283 RHQLGAILKYFDTKHKSILLILDEI 307
R L + K LLILD+I
Sbjct: 101 R-TLQRLAKA-------DLLILDDI 117
>gnl|CDD|236442 PRK09270, PRK09270, nucleoside triphosphate hydrolase
domain-containing protein; Reviewed.
Length = 229
Score = 28.0 bits (63), Expect = 9.9
Identities = 8/11 (72%), Positives = 9/11 (81%)
Query: 223 YISGPPGTGKS 233
I+GPPG GKS
Sbjct: 37 GIAGPPGAGKS 47
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
0.314 0.131 0.366
Gapped
Lambda K H
0.267 0.0643 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 24,030,109
Number of extensions: 2311240
Number of successful extensions: 2195
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2164
Number of HSP's successfully gapped: 90
Length of query: 490
Length of database: 10,937,602
Length adjustment: 101
Effective length of query: 389
Effective length of database: 6,457,848
Effective search space: 2512102872
Effective search space used: 2512102872
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 61 (27.5 bits)