RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddA
21,609 sequences; 6,263,737 total letters
Searching..................................................done
Query= gi|255764514|ref|YP_003065586.2| DNA repair protein RecN
[Candidatus Liberibacter asiaticus str. psy62]
(554 letters)
>gnl|CDD|30843 COG0497, RecN, ATPase involved in DNA repair [DNA replication,
recombination, and repair].
Length = 557
Score = 502 bits (1295), Expect = e-143
Identities = 225/556 (40%), Positives = 343/556 (61%), Gaps = 8/556 (1%)
Query: 1 MTRLSIYNIVLIESLDIDFSAGLSILSGDTGSGKSILLDALILVTGGRGDGGLVRRHAEK 60
+ LSI N +IE L+++F GL++L+G+TG+GKSI++DAL L+ GGR D LVR A++
Sbjct: 2 LLELSIKNFAIIEELELEFEKGLTVLTGETGAGKSIIIDALGLLLGGRADASLVRHGAKR 61
Query: 61 GQVVAVFEISHLPALEILFAEANLTLEKHVILRRVQFPDGRTKAYVNDQVVSVNFMRAVG 120
+V A+F++ + PA L E + ++ VILRRV DGR++A++N Q VS+ ++ +G
Sbjct: 62 AEVEAIFDLDNPPARAWL-EENGIEDDEEVILRRVISADGRSRAFINGQPVSLAQLKELG 120
Query: 121 SLLIEIHSQHADRSLLDVQGHRKILDSYADI-DLSLCELGTLYRHWCCTADALKKYQEQK 179
LLI+IH QH +SLL + R++LD++A + +L+ Y+ W L+ QE++
Sbjct: 121 QLLIDIHGQHEHQSLLKPELQRQLLDAFAGLEELAQEAYQEAYQAWKQARRELEDLQEKE 180
Query: 180 SS-SQDVEFLRFSIDELQALAVQPGEENELVVMRSKILKQERIAVELSSIMDDFHKSSSP 238
+Q + L+F ++EL+ L +QPGE+ EL R ++ E++A + + ++
Sbjct: 181 RERAQRADLLQFQLEELEELNLQPGEDEELEEERKRLSNSEKLAEAIQNALELLSGEDDT 240
Query: 239 ISVISSMLRRLER--KSTEVPDLLQKSISFLNEAQENLSDAQHEIERSFSEIQYDAQELA 296
+S +S + R LE +E L + L EA L +A E+ E+++D L
Sbjct: 241 VSALSLLGRALEALEDLSEYDGKLSELAELLEEALYELEEASEELRAYLDELEFDPNRLE 300
Query: 297 NIEERLFALRAMSRKYSVSIDQLPELAKKMEEDLADISEGNEKVVSLERVLYEARQAYDR 356
+EERLFAL++++RKY V+I+ L E K++E+LA + E + +LE+ + + +
Sbjct: 301 EVEERLFALKSLARKYGVTIEDLLEYLDKIKEELAQLDNSEESLEALEKEVKKLKAELLE 360
Query: 357 VAQDISTKRYQFAKMLEKNVMAEMPALKLENVCFTVNITSDKEDISPDGIDRVEFYVQTN 416
A+ +S R + AK LEK V AE+ AL +E FTV + +E + DG D+VEF + TN
Sbjct: 361 AAEALSAIRKKAAKELEKEVTAELKALAMEKARFTVELKPLEESPTADGADKVEFLISTN 420
Query: 417 RGENPGPLMKLASGGELSRFLLALKIVLVDQGSIPTLVFDEVDSGIGGAVADAIGYRLKQ 476
GE PL K+ASGGELSR +LALK++L + PTL+FDEVD+GI G VA A+G +L++
Sbjct: 421 PGEPLKPLAKVASGGELSRIMLALKVILSRKDDTPTLIFDEVDTGISGRVAQAVGKKLRR 480
Query: 477 LSKKIQLLAVTHAPQVAARADRHFLVYKTNKPDDTQRIETYVAVLTPQERREEIARMLAG 536
LS+ Q+L VTH PQVAA AD HFLV K ++ R E+ V L +ER EEIARML G
Sbjct: 481 LSEHHQVLCVTHLPQVAAMADTHFLVEKESE---DGRTESRVRPLDKEERVEEIARMLGG 537
Query: 537 SHITEEARAAAEILLE 552
S +T+EA A A+ LL
Sbjct: 538 SEVTDEALAHAKELLA 553
>gnl|CDD|73000 cd03241, ABC_RecN, RecN ATPase involved in DNA repair; ABC
(ATP-binding cassette) transporter nucleotide-binding
domain; ABC transporters are a large family of proteins
involved in the transport of a wide variety of different
compounds including sugars, ions, peptides, and more
complex organic molecules. The nucleotide binding
domain shows the highest similarity between all members
of the family. ABC transporters are a subset of
nucleotide hydrolases that contain a signature motif,
Q-loop, and H-loop/switch region, in addition to, the
Walker A motif/P-loop and Walker B motif commonly found
in a number of ATP- and GTP-binding and hydrolyzing
proteins..
Length = 276
Score = 170 bits (432), Expect = 1e-42
Identities = 73/133 (54%), Positives = 92/133 (69%), Gaps = 3/133 (2%)
Query: 404 DGIDRVEFYVQTNRGENPGPLMKLASGGELSRFLLALKIVLVDQGSIPTLVFDEVDSGIG 463
G+D VEF TN GE PL K+ASGGELSR +LALK +L + ++PTL+FDE+D+GI
Sbjct: 147 GGLDDVEFLFSTNPGEPLKPLAKIASGGELSRLMLALKAILARKDAVPTLIFDEIDTGIS 206
Query: 464 GAVADAIGYRLKQLSKKIQLLAVTHAPQVAARADRHFLVYKTNKPDDTQRIETYVAVLTP 523
G VA A+G +LK+LS+ Q+L +TH PQVAA AD HFLV K + R T V L
Sbjct: 207 GEVAQAVGKKLKELSRSHQVLCITHLPQVAAMADNHFLVEKEVE---GGRTVTKVRELDK 263
Query: 524 QERREEIARMLAG 536
+ER EEIARML+G
Sbjct: 264 EERVEEIARMLSG 276
Score = 146 bits (371), Expect = 1e-35
Identities = 63/150 (42%), Positives = 94/150 (62%)
Query: 1 MTRLSIYNIVLIESLDIDFSAGLSILSGDTGSGKSILLDALILVTGGRGDGGLVRRHAEK 60
+ LSI N LIE L++DF GL++L+G+TG+GKSILLDAL L+ GGR L+R AEK
Sbjct: 1 LLELSIKNFALIEELELDFEEGLTVLTGETGAGKSILLDALSLLLGGRASADLIRSGAEK 60
Query: 61 GQVVAVFEISHLPALEILFAEANLTLEKHVILRRVQFPDGRTKAYVNDQVVSVNFMRAVG 120
V VF+IS + L E + + +I+RR GR++ ++N Q V++ +R +G
Sbjct: 61 AVVEGVFDISDEEEAKALLLELGIEDDDDLIIRREISRKGRSRYFINGQSVTLKLLRELG 120
Query: 121 SLLIEIHSQHADRSLLDVQGHRKILDSYAD 150
SLL++IH QH ++LL+ + +LD D
Sbjct: 121 SLLVDIHGQHDHQNLLNPERQLDLLDGGLD 150
>gnl|CDD|31389 COG1196, Smc, Chromosome segregation ATPases [Cell division and
chromosome partitioning].
Length = 1163
Score = 53.9 bits (129), Expect = 1e-07
Identities = 68/341 (19%), Positives = 129/341 (37%), Gaps = 27/341 (7%)
Query: 194 ELQALAVQPGEENELVVMRSKILKQERIAVELSSIMDDFHKSSSPISVISSMLRRLERKS 253
E + A++ E+ + E + E+ + + + + + L L+ +
Sbjct: 806 ERRLDALERELESLEQRRERLEQEIEELEEEIEELEEKLDELEEELEELEKELEELKEEL 865
Query: 254 TEVPDLLQKSISFLNEAQENLSDAQHEIERSFSEIQYDAQELANIEERLFALRAMSRKYS 313
E+ ++ L E +E + + E+ SE+ +E+ + ERL L A +
Sbjct: 866 EELEAEKEELEDELKELEEEKEELEEELRELESELAELKEEIEKLRERLEELEAKLERLE 925
Query: 314 VSIDQLPELAKKMEEDLAD------ISEGNEKVVSLERVLYEARQAYDRVAQDISTKRYQ 367
V + +L E ++ ED + I E++ +L V A + Y+ V + + Q
Sbjct: 926 VELPELEEELEEEYEDTLETELEREIERLEEEIEALGPVNLRAIEEYEEVEERYEELKSQ 985
Query: 368 FAKMLE-----KNVMAEMPALKLENVCFTVNITSDK-----EDISPDGIDRVEF------ 411
+ E V+ E+ K E T + ++ +++ G +E
Sbjct: 986 REDLEEAKEKLLEVIEELDKEKRERFKETFDKINENFSEIFKELFGGGTAELELTEPDDP 1045
Query: 412 -----YVQTNRGENPGPLMKLASGGELSRFLLALKIVLVDQGSIPTLVFDEVDSGIGGAV 466
+ + L SGGE S LAL + P V DEVD+ + A
Sbjct: 1046 LTAGIEISARPPGKKLQSLSLLSGGEKSLTALALLFAIQKYRPAPFYVLDEVDAALDDAN 1105
Query: 467 ADAIGYRLKQLSKKIQLLAVTHAPQVAARADRHFLVYKTNK 507
+ + +K++SK+ Q + +TH ADR V K
Sbjct: 1106 VERVARLIKEMSKETQFIVITHRKGTMEAADRLVGVTMQEK 1146
Score = 40.0 bits (93), Expect = 0.002
Identities = 76/387 (19%), Positives = 151/387 (39%), Gaps = 68/387 (17%)
Query: 17 IDFSAGLSILSGDTGSGKSILLDALILVTGG------RGD--------GGLVRRHAEKGQ 62
I+FS G + + G GSGKS ++DA+ V G R G R+ A +
Sbjct: 20 INFSPGFTAIVGPNGSGKSNIVDAIRFVLGEQSAKNLRASKMSDLIFAGSGNRKPANYAE 79
Query: 63 VVAVFEISHLPALEILFAEANLTLEKHVILRRVQFPDGRTKAYVNDQVVSVNFMRAVGSL 122
V F+ S L E+ + RR+ + DG ++ Y+N + V
Sbjct: 80 VELTFDNSD--------NTLPLEYEEISVTRRI-YRDGESEYYINGEKVR---------- 120
Query: 123 LIEIHSQHADRSLLDV------QGH------------RKILDSYADIDLSLCELGTLYRH 164
L +I AD + QG RK+++ A + E
Sbjct: 121 LKDIQDLLADSGIGKESYSIVSQGKVEEIINAKPEERRKLIEEAAGV-SKYKER------ 173
Query: 165 WCCTADALKKYQEQKSSSQDVEFLRFSID-ELQALAVQPGEENELVVMRSKILKQER--I 221
+A +K + + + + +E L ++ +L+ L Q + +++++ + E +
Sbjct: 174 ---KEEAERKLERTEENLERLEDLLEELEKQLEKLERQAEKAERYQELKAELRELELALL 230
Query: 222 AVELSSIMDDFHKSSSPISVISSMLRRLERKSTEVPDLLQKSISFLNEAQENLSDAQHEI 281
+L + + + +S + L L+ + E +++ S L E +E L + Q E+
Sbjct: 231 LAKLKELRKELEELEEELSRLEEELEELQEELEEAEKEIEELKSELEELREELEELQEEL 290
Query: 282 ERSFSEIQYDAQELANIEERLFALRAMSRKYSVSIDQLPE----LAKKMEEDLADISEGN 337
EI+ E++ + ERL L + +++L E L +++EE + E
Sbjct: 291 LELKEEIEELEGEISLLRERLEELENELEELEERLEELKEKIEALKEELEERETLLEELE 350
Query: 338 EKVVSLERVLYEARQAYDRVAQDISTK 364
+ + LE E + + +++
Sbjct: 351 QLLAELEEAKEELEEKLSALLEELEEL 377
>gnl|CDD|30768 COG0419, SbcC, ATPase involved in DNA repair [DNA replication,
recombination, and repair].
Length = 908
Score = 53.1 bits (127), Expect = 2e-07
Identities = 73/401 (18%), Positives = 151/401 (37%), Gaps = 46/401 (11%)
Query: 3 RLSIYNIVLIESLDID--FSAGLSILSGDTGSGKSILLDALILVTGGRGDGGLVRRHAEK 60
RL + N + +DI+ F +G+ ++ G G+GKS +LDA+ G+ +
Sbjct: 5 RLRLKNFRSFKDIDIEKLFDSGIFLIVGPNGAGKSSILDAITFALYGKTPRLGAFSLDDL 64
Query: 61 GQVVAVFEISHLPALEILFAEANLTLEKHVILRRVQFPDGRTKAYVNDQVVSVNFMRAVG 120
+ + E + +F GR ++ + Q++ V+ R
Sbjct: 65 IRAGE----------KSASVELEFEVNGKKYRIEREFRRGRGQSTGSLQIIEVDGERIAD 114
Query: 121 S---------LLIEIHSQHADRSLLDVQGH-RKILDS----YADIDLSLCELGTLYRHWC 166
L+ + RS+ QG L S +I L L +
Sbjct: 115 GKKDVNEKIEELLGLDKDTFTRSVYLPQGEFDAFLKSKPKERKEILDELFGLEKYEKLSE 174
Query: 167 CTADALKKYQEQKSS------------SQDVEFLRFSIDELQALAVQPGEENELVVMRSK 214
+ +K+ + + +E L + EL+ L + EE E + +
Sbjct: 175 LLKEVIKEAKAKIEELEGQLSELLEDIEDLLEALEEELKELKKLE-EIQEEQEEEELEQE 233
Query: 215 ILKQERIAVELSSIMDDFHKSSSPISVISSMLRRLERKSTEVPDLLQKSISFLNEAQENL 274
I E EL + + + + I S+ + E L++ + L E E L
Sbjct: 234 IEALEERLAELEEEKERLEELKARLLEIESLELEALKIREEELRELERLLEELEEKIERL 293
Query: 275 SDAQHEIERSFSEIQYDAQELANIEERLFALRAMSRKYSVSIDQLPELAKKMEEDLADIS 334
+ + EIE E++ L +EE L L+++ ++L +L +K+E+ +++
Sbjct: 294 EELEREIEELEEELEGLRALLEELEELLEKLKSLE-------ERLEKLEEKLEKLESELE 346
Query: 335 EGNEKVVSLERVLYEARQAYDRVAQDISTKRYQFAKMLEKN 375
E E+ L ++L E + + +++ + + + L++
Sbjct: 347 ELAEEKNELAKLLEERLKELEERLEELEKELEKALERLKQL 387
Score = 42.0 bits (98), Expect = 5e-04
Identities = 69/350 (19%), Positives = 139/350 (39%), Gaps = 22/350 (6%)
Query: 173 KKYQEQKSSSQDVEFLRFSIDELQALAVQPGEENELVVMRSKILKQERIAVELSSIMDDF 232
+ +E + ++ L+ ++EL+ L + E EL ++ K+ + E S +++
Sbjct: 556 QLKEELRQLEDRLQELKELLEELRLLRTRKEELEELRERLKELKKKLKELEERLSQLEEL 615
Query: 233 HKSSSPISVISSMLRRLERKSTEVPDLLQKSISFLNEAQENLSDAQHEIERSFSEIQYDA 292
+S + + E +E+ + L Q L + + ++E +EI+ +
Sbjct: 616 LQSLELSEAENELEEAEEELESEL-EKLNLQAELEELLQAALEELEEKVEELEAEIRREL 674
Query: 293 QELANI---EERLFALRAMSRKYSVSIDQLPELAKKMEEDLADISEGNEKVVSLERVLYE 349
Q + N EE+L L + + ++L EL KK+ E I E + LE + E
Sbjct: 675 QRIENEEQLEEKLEELEQLEEELEQLREELEELLKKLGEIEQLIEELESRKAELEELKKE 734
Query: 350 ARQAYD--RVAQDISTK--RYQFAKMLEKNVMAEMPALKLENV-CFTVNITSDKEDISPD 404
+ + +++ K + + +N++A++ A E + ++N +
Sbjct: 735 LEKLEKALELLEELREKLGKAGLRADILRNLLAQIEAEANEILSKLSLNRYDLRRLTIRK 794
Query: 405 GIDRVEFYVQTNRGENPGPLMKLASGGELSRFLLALKIVLVDQ----GSIPTLVFDE--- 457
+ V + GE K SGGE LAL++ L D + L DE
Sbjct: 795 DGNGGLVVVVYDGGEVRPI--KTLSGGERFLASLALRLALSDLLQGRARLELLFLDEPFG 852
Query: 458 -VDSGIGGAVADAIGYRLKQLSKKIQLLAVTHAPQVAARADRHFLVYKTN 506
+D +A+ + L Q++ ++H ++ RAD V K
Sbjct: 853 TLDEERLEKLAEILEELLSDGR---QIIIISHVEELKERADVRIRVKKDG 899
Score = 35.4 bits (81), Expect = 0.044
Identities = 37/194 (19%), Positives = 84/194 (43%), Gaps = 10/194 (5%)
Query: 173 KKYQEQKSSSQDVEFLRFSIDELQALAVQPGEENELVVMRSKILKQERIAVELSSIMDDF 232
++ +K ++ E + EL+ L + E EL + L+++ +E +
Sbjct: 488 EELSREKEEAELREEIEELEKELRELEEELIELLELEEALKEELEEKLEKLENLLEELEE 547
Query: 233 HKSSSPISVISSMLRRLERKSTEVPDLLQK--SISFLNEAQENLSDAQHEIERSFSEIQY 290
K + + LR+LE + E+ +LL++ + E E L + E+++ E++
Sbjct: 548 LKEKLQLQQLKEELRQLEDRLQELKELLEELRLLRTRKEELEELRERLKELKKKLKELE- 606
Query: 291 DAQELANIEERLFALRAMSRKYSVSIDQLPELAKKMEEDLADISEGNEKVVSLERVLYEA 350
+ L+ +EE L +L + +L E +++E +L ++ E L+ L E
Sbjct: 607 --ERLSQLEELLQSLELSEAEN-----ELEEAEEELESELEKLNLQAELEELLQAALEEL 659
Query: 351 RQAYDRVAQDISTK 364
+ + + +I +
Sbjct: 660 EEKVEELEAEIRRE 673
>gnl|CDD|36182 KOG0964, KOG0964, KOG0964, Structural maintenance of chromosome
protein 3 (sister chromatid cohesion complex Cohesin,
subunit SMC3) [Cell cycle control, cell division,
chromosome partitioning].
Length = 1200
Score = 48.4 bits (115), Expect = 5e-06
Identities = 48/224 (21%), Positives = 92/224 (41%), Gaps = 11/224 (4%)
Query: 293 QELANIEERLFALRAMSRKYSVSIDQLPELAKKMEEDLADISEGNEKVVSLERVLYEARQ 352
++L E L +++K E + +++ ++ + ++ L VL ++
Sbjct: 956 KKLHRCNEELKGYSNVNKKALDQFVNFSEQRESLKKRQEELDRSKDSILELITVL--DQR 1013
Query: 353 AYDRVAQDISTKRYQFAKMLEKNV---MAEMPALKLENVCFTVNITSDKEDISPDGIDRV 409
Y+ + + F+++ + V A + K +N D + S +G D V
Sbjct: 1014 KYEAIDLTFKQVKKNFSEVFSRLVPGGTALIIMRKRDNANDHDEDDGDMDGESNEGKDSV 1073
Query: 410 EFY------VQTNRGENPGPLMKLASGGELSRFLLALKIVLVDQGSIPTLVFDEVDSGIG 463
E Y V N + M+ SGG+ S LAL + P +FDE+D+ +
Sbjct: 1074 EMYTGISIKVSFNSKQGETLEMEQLSGGQKSVVALALIFAIQRCDPAPFYLFDEIDAALD 1133
Query: 464 GAVADAIGYRLKQLSKKIQLLAVTHAPQVAARADRHFLVYKTNK 507
A+ +K+LS Q + T P++ + AD+ + V NK
Sbjct: 1134 AQYRTAVADLIKELSDSAQFITTTFRPELLSVADKFYGVKFENK 1177
>gnl|CDD|72986 cd03227, ABC_Class2, ABC-type Class 2 contains systems involved in
cellular processes other than transport. These families
are characterised 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 = 47.3 bits (112), Expect = 1e-05
Identities = 23/80 (28%), Positives = 37/80 (46%), Gaps = 1/80 (1%)
Query: 428 ASGGELSRFLLALKIVLVDQGSIPTLVFDEVDSGIGGAVADAIGYRLKQLSKKI-QLLAV 486
SGGE LAL + L P + DE+D G+ A+ + + K Q++ +
Sbjct: 78 LSGGEKELSALALILALASLKPRPLYILDEIDRGLDPRDGQALAEAILEHLVKGAQVIVI 137
Query: 487 THAPQVAARADRHFLVYKTN 506
TH P++A AD+ + K
Sbjct: 138 THLPELAELADKLIHIKKVI 157
Score = 42.6 bits (100), Expect = 3e-04
Identities = 21/55 (38%), Positives = 29/55 (52%), Gaps = 1/55 (1%)
Query: 16 DIDFSAG-LSILSGDTGSGKSILLDALILVTGGRGDGGLVRRHAEKGQVVAVFEI 69
D+ F G L+I++G GSGKS +LDA+ L GG R + G +VA
Sbjct: 15 DVTFGEGSLTIITGPNGSGKSTILDAIGLALGGAQSATRRRSGVKAGCIVAAVSA 69
>gnl|CDD|73031 cd03272, ABC_SMC3_euk, Eukaryotic SMC3 proteins; SMC proteins are
large (approximately 110 to 170 kDa), and each is
arranged into five recognizable domains. Amino-acid
sequence homology of SMC proteins between species is
largely confined to the amino- and carboxy-terminal
globular domains. The amino-terminal domain contains a
'Walker A' nucleotide-binding domain (GxxGxGKS/T, in the
single-letter amino-acid code), which by mutational
studies has been shown to be essential in several
proteins. The carboxy-terminal domain contains a
sequence (the DA-box) that resembles a 'Walker B' motif,
and a motif with homology to the signature sequence of
the ATP-binding cassette (ABC) family of ATPases. The
sequence homology within the carboxy-terminal domain is
relatively high within the SMC1-SMC4 group, whereas SMC5
and SMC6 show some divergence in both of these
sequences. In eukaryotic cells, the proteins are found
as heterodimers of SMC1 paired with SMC3, SMC2 with
SMC4, and SMC5 with SMC6 (formerly known as Rad18)..
Length = 243
Score = 46.0 bits (109), Expect = 3e-05
Identities = 27/93 (29%), Positives = 44/93 (47%)
Query: 415 TNRGENPGPLMKLASGGELSRFLLALKIVLVDQGSIPTLVFDEVDSGIGGAVADAIGYRL 474
TN ++ M+ SGG+ S LAL + P +FDE+D+ + A+ +
Sbjct: 146 TNMKQDEQQEMQQLSGGQKSLVALALIFAIQKCDPAPFYLFDEIDAALDAQYRTAVANMI 205
Query: 475 KQLSKKIQLLAVTHAPQVAARADRHFLVYKTNK 507
K+LS Q + T P++ AD+ + V NK
Sbjct: 206 KELSDGAQFITTTFRPELLEVADKFYGVKFRNK 238
>gnl|CDD|73037 cd03278, ABC_SMC_barmotin, Barmotin is a tight junction-associated
protein expressed in rat epithelial cells which is
thought to have an important regulatory role in tight
junction barrier function. Barmotin belongs to the SMC
protein family. SMC proteins are large (approximately
110 to 170 kDa), and each is arranged into five
recognizable domains. Amino-acid sequence homology of
SMC proteins between species is largely confined to the
amino- and carboxy-terminal globular domains. The
amino-terminal domain contains a 'Walker A'
nucleotide-binding domain (GxxGxGKS/T, in the
single-letter amino-acid code), which by mutational
studies has been shown to be essential in several
proteins. The carboxy-terminal domain contains a
sequence (the DA-box) that resembles a 'Walker B' motif,
and a motif with homology to the signature sequence of
the ATP-binding cassette (ABC) family of ATPases. The
sequence homology within the carboxy-terminal domain is
relatively high within the SMC1-SMC4 group, whereas SMC5
and SMC6 show some divergence in both of these
sequences. In eukaryotic cells, the proteins are found
as heterodimers of SMC1 paired with SMC3, SMC2 with
SMC4, and SMC5 with SMC6 (formerly known as Rad18)..
Length = 197
Score = 45.4 bits (108), Expect = 3e-05
Identities = 25/74 (33%), Positives = 35/74 (47%)
Query: 425 MKLASGGELSRFLLALKIVLVDQGSIPTLVFDEVDSGIGGAVADAIGYRLKQLSKKIQLL 484
+ L SGGE + LAL + P V DEVD+ + A + LK+ SK+ Q +
Sbjct: 111 LSLLSGGEKALTALALLFAIFRVRPSPFCVLDEVDAALDDANVERFARLLKEFSKETQFI 170
Query: 485 AVTHAPQVAARADR 498
+TH ADR
Sbjct: 171 VITHRKGTMEAADR 184
Score = 33.5 bits (77), Expect = 0.16
Identities = 23/75 (30%), Positives = 31/75 (41%), Gaps = 5/75 (6%)
Query: 13 ESLDIDFSAGLSILSGDTGSGKSILLDALILVTGGRGDGGLVRRHAEKGQVVAVFEISHL 72
+ I F GL+ + G GSGKS ++DA+ V G + L EK V
Sbjct: 14 DKTTIPFPPGLTAIVGPNGSGKSNIIDAIRWVLGEQSAKSL---RGEKMSDVIFAGSETR 70
Query: 73 PALEILFAEANLTLE 87
FAE LT +
Sbjct: 71 KPAN--FAEVTLTFD 83
>gnl|CDD|31388 COG1195, RecF, Recombinational DNA repair ATPase (RecF pathway)
[DNA replication, recombination, and repair].
Length = 363
Score = 44.1 bits (104), Expect = 1e-04
Identities = 23/72 (31%), Positives = 39/72 (54%), Gaps = 5/72 (6%)
Query: 2 TRLSIYNIVLIESLDIDFSAGLSILSGDTGSGKSILLDALILVTGGRG-----DGGLVRR 56
L + N LD+D S G+++L G+ G GK+ LL+A+ L+ GR D L+R
Sbjct: 4 LSLLLRNFRNYAELDLDLSPGVNVLVGENGQGKTNLLEAIYLLALGRSHRTSRDKELIRT 63
Query: 57 HAEKGQVVAVFE 68
A++ ++ A +
Sbjct: 64 GADEAEISARVQ 75
>gnl|CDD|33731 COG3950, COG3950, Predicted ATP-binding protein involved in
virulence [General function prediction only].
Length = 440
Score = 42.3 bits (99), Expect = 3e-04
Identities = 53/299 (17%), Positives = 103/299 (34%), Gaps = 28/299 (9%)
Query: 216 LKQERIAVELSSIMDDFHKSSSPISVISSMLRRLERKSTEVPDLLQKSISFLNEAQENLS 275
L+ + + +EL I S+P ++ + ++K T V N+ +E
Sbjct: 58 LRFKSLKIELDDIELCIMSQSNPTVAVAVVEYENDKKRTWVLTK--------NKNKELDV 109
Query: 276 DAQHEIERSFSEIQY-DAQELAN--IEERLFALRAMSRKYSVSIDQLPELAKKMEEDL-- 330
D EI + D+ + L A R + AK
Sbjct: 110 DKVDEILNKLGILMNIDSDPILKSYNHLPLLAYYGTKRLWLHKRKH----AKSDFLRKSN 165
Query: 331 --ADISEGNEKVVSLERVLYEARQAYDRVAQDISTKRYQFAKMLEKNVMAEMPALKLENV 388
A+ + G + + Y+ + + + + + +N+ +E A + +
Sbjct: 166 PNAERTFGYADCLENTSNFKSFIEWYEHFILQLISPSAEEKEQISQNLDSEFIARLQDAI 225
Query: 389 CFTVNITSDKEDISPDGIDRVEFYVQTNRGENP------GPLMKLASGGELSRFLLALKI 442
++ TS + + F N GE P GP K A +++R + L
Sbjct: 226 NENISSTSWNDLLIGSQRKHELFMKHGNGGEIPLSELSDGPRTKFALVADIARRCVVLNP 285
Query: 443 VLVDQGSIPT---LVFDEVDSGIGGAVADAIGYRLKQLSKKIQLLAVTHAPQVAARADR 498
L D + T ++ DE+D + I +L +IQ + TH+P V + +
Sbjct: 286 YLSDALAKLTPGIVLIDEIDLFLHPKWQQQINQKLLSAFPEIQFIVSTHSPFVLSTVNG 344
Score = 35.4 bits (81), Expect = 0.044
Identities = 15/40 (37%), Positives = 24/40 (60%), Gaps = 1/40 (2%)
Query: 3 RLSIYNIVLIESLDIDFSAG-LSILSGDTGSGKSILLDAL 41
++S+ N +LDI F +I+ G GSGK+ +LDA+
Sbjct: 5 KISLNNFRCFLNLDITFGESETTIIVGPNGSGKTTVLDAI 44
>gnl|CDD|35383 KOG0161, KOG0161, KOG0161, Myosin class II heavy chain
[Cytoskeleton].
Length = 1930
Score = 42.1 bits (99), Expect = 4e-04
Identities = 36/141 (25%), Positives = 57/141 (40%), Gaps = 10/141 (7%)
Query: 246 LRRLERKSTEVPDLLQKSISFLNEAQENLSDAQHEIERSFSEIQYDAQELANIEERLFAL 305
+R E + ++ + LQKS S E +E L E ++Q + + LA EE L L
Sbjct: 840 MRAKEEEIQKLKEELQKSESKRKELEEKLVKLLEEKNDLQEQLQAEKENLAEAEELLERL 899
Query: 306 RAMSRKYSVSIDQLPELAKKMEEDLADISEGNEKVVSLERVLYEARQAYDRVAQDISTKR 365
RA + EL K+++E + E EK LER + Q + + +
Sbjct: 900 RA----------EKQELEKELKELKERLEEEEEKNAELERKKRKLEQEVQELKEQLEELE 949
Query: 366 YQFAKMLEKNVMAEMPALKLE 386
K+ + AE LE
Sbjct: 950 LTLQKLELEKNAAENKLKNLE 970
Score = 33.3 bits (76), Expect = 0.16
Identities = 40/252 (15%), Positives = 92/252 (36%), Gaps = 33/252 (13%)
Query: 169 ADALKKYQE-QKSSSQDVEFLRFSI-DELQALAVQPGEENELVVMRSKILKQERIAVELS 226
A KK++E +++E L+ + LQ L Q N K R+ EL
Sbjct: 1360 AQWKKKFEEEVLQRLEELEELKKKLQQRLQELEEQIEAANAKNASLEKAKN--RLQQELE 1417
Query: 227 SIMDDFHKSSSPISVISSMLRRLERKSTEVPDLLQKSISFLNEAQENLSDAQHEIERSFS 286
+ D +S + ++ + +R E L E ++ L Q E++ +
Sbjct: 1418 DLQLDLERSRAAVAALEKKQKRFE--------------KLLAEWKKKLEKLQAELDAA-- 1461
Query: 287 EIQYDAQELANIEERLFALRAMSRKYSVSIDQLPELAKKMEEDLADISEGNEKVVSLERV 346
+EL + L L+ + +++L K + +++ D+ E + +
Sbjct: 1462 -----QRELRQLSTELQKLKNALEELLEQLEELRRENKNLSQEIEDLEEQKD---EGGKR 1513
Query: 347 LYEARQAYDRVAQDISTKRYQFAKMLEKNVMAEMPALKLENVCFTVNITSDKEDISPDGI 406
++E + R+ Q+ + ++ E L+L+ + + + +I
Sbjct: 1514 VHELEKEKRRLEQEKEELQAALEELEAALEAEEDKKLRLQ-----LELQQLRSEIERRLQ 1568
Query: 407 DRVEFYVQTNRG 418
++ E + +
Sbjct: 1569 EKDEEIEELRKN 1580
Score = 29.8 bits (67), Expect = 1.9
Identities = 35/178 (19%), Positives = 68/178 (38%), Gaps = 22/178 (12%)
Query: 178 QKSSSQDVEFLRFSIDELQALAVQPGEENELVVMRSKILKQERIAVELSSIMDDFHKSSS 237
+K + + L+ +++LQ + +E + L E + S D
Sbjct: 1184 RKKHADSLAELQEQLEQLQKDKAKLEKEKSDLQREIADLAAE-LEQLSSEKKD------- 1235
Query: 238 PISVISSMLRRLERKSTEVPDLLQKSISFLNEAQENLSDAQHEIERSFSEIQYDAQELAN 297
+ ++LE L + L+E + +D + R +E + +++L
Sbjct: 1236 ----LEKKDKKLE-------AQLSELQLKLDEQERLRNDLTAKRSRLQNENEELSRQL-- 1282
Query: 298 IEERLFALRAMSRKYSVSIDQLPELAKKMEEDLADISEGNEKVVSLERVLYEARQAYD 355
EE L A+SR QL EL +++EE+ + S + LE L R+ +
Sbjct: 1283 -EEAEAKLSALSRDKQALESQLEELKRQLEEETREKSALENALRQLEHELDLLREQLE 1339
Score = 28.3 bits (63), Expect = 5.9
Identities = 25/142 (17%), Positives = 63/142 (44%), Gaps = 10/142 (7%)
Query: 205 ENELVVMRSKILKQERIAVELSSIMDDFHKSSSPISVISSMLRRLERKSTEVPDLLQKSI 264
E L +R++ + E+ EL +++ + ++ + R+LE++ E+ + L++
Sbjct: 893 EELLERLRAEKQELEKELKELKERLEEEEEKNA---ELERKKRKLEQEVQELKEQLEELE 949
Query: 265 SFLNEAQENLSDAQHEIERSFSEIQYDAQELANIEERLFALRAMSRKYSVSIDQLPELAK 324
L + + + A+++++ EI + ++ + + L R+ + E AK
Sbjct: 950 LTLQKLELEKNAAENKLKNLEEEINSLDENISKLSKEKKELEERIRELQDDLQAEEEKAK 1009
Query: 325 -------KMEEDLADISEGNEK 339
K+E+ L D+ E+
Sbjct: 1010 SLNKAKAKLEQQLDDLEVTLER 1031
Score = 28.3 bits (63), Expect = 6.3
Identities = 26/138 (18%), Positives = 51/138 (36%), Gaps = 19/138 (13%)
Query: 244 SMLRRLERKSTEVPDLLQKSISFLNEAQENL----SDAQHEIERSFSEIQYDAQELANIE 299
+ + L +K + LQ+ + L + + L SD Q EI +E++ + E ++E
Sbjct: 1178 AQIEELRKKHADSLAELQEQLEQLQKDKAKLEKEKSDLQREIADLAAELEQLSSEKKDLE 1237
Query: 300 ERLFALRAMSRKYSVSIDQLPELAKKMEEDLADISEG----NEKVVSLERVLYEARQAYD 355
+ +K + +L + E D++ + L R L EA +
Sbjct: 1238 K-------KDKKLEAQLSELQLKLDEQERLRNDLTAKRSRLQNENEELSRQLEEA----E 1286
Query: 356 RVAQDISTKRYQFAKMLE 373
+S + LE
Sbjct: 1287 AKLSALSRDKQALESQLE 1304
>gnl|CDD|145545 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 = 41.9 bits (98), Expect = 5e-04
Identities = 61/349 (17%), Positives = 110/349 (31%), Gaps = 20/349 (5%)
Query: 169 ADALKKYQEQKSSSQDVEFLRFSIDELQALAVQPGEENELVVMRSKILKQERIAVELSSI 228
+ L QE+K +++E L + E Q L EE E + + + +
Sbjct: 820 EEQLLIEQEEKIKEEELEELALELKEEQKLEKLAEEELERLEEEITKEELLQELLLKEEE 879
Query: 229 MDDF---HKSSSPISVISSMLRRLERKSTEVPDLLQKSISFLNEAQENLSDAQHEIERSF 285
+++ + S + LE +S + L +K E
Sbjct: 880 LEEQKLKDELESKEEKEKEEKKELEEESQKDNLLEEKENEIEERIAEEAIILLKYES--E 937
Query: 286 SEIQYDAQELANIEERLFALRAMSRKYSVSIDQLPELAKKMEEDLADISEGNEKVVSLER 345
E + +E R + EL +A+ E E+ E
Sbjct: 938 PEELLLEEADEKEKEEDNKEEEEERNKRLL-LAKEELGNVNLMAIAEFEEKEERYNKDEL 996
Query: 346 VLYEARQAYDRVAQ-DISTKRYQFAKMLEKNVMAEMPALKLENVCFTVNIT----SDKED 400
+ + + I +F + LE V K+ D +D
Sbjct: 997 KKERLEEEKKELLREIIEETCQRFKEFLELFVSINRGLNKVFFYLELGGSAELRLEDSDD 1056
Query: 401 ISPDGIDRVEFYVQTNRGENPGPLMKLASGGELSRFLLALKIVLVDQGSIPT--LVFDEV 458
GI + + SGGE + L+AL ++ Q P + DE+
Sbjct: 1057 PFSGGI-----EISARPPGKGVKNLDNLSGGEKT--LVALALIFAIQKYRPAPFYLLDEI 1109
Query: 459 DSGIGGAVADAIGYRLKQLSKKIQLLAVTHAPQVAARADRHFLVYKTNK 507
D+ + + LK+LSK Q + ++ ++ +ADR VY
Sbjct: 1110 DAALDDQNVSRVANYLKELSKNAQFIVISLREEMLEKADRLVGVYMVEN 1158
Score = 34.6 bits (79), Expect = 0.075
Identities = 28/109 (25%), Positives = 50/109 (45%), Gaps = 10/109 (9%)
Query: 13 ESLDIDFSAGLSILSGDTGSGKSILLDALILVTGGRGDGGLVRRHAEKGQVVAVFEISHL 72
+++ + FS G + + G GSGKS +LDA++ V G R L +E+ + + S
Sbjct: 15 KTVILPFSPGFTAIVGPNGSGKSNILDAILFVLGERSAKSL---RSERLSDLIHYSKSGA 71
Query: 73 PAL----EILFAE--ANLTLEKH-VILRRVQFPDGRTKAYVNDQVVSVN 114
I F L ++ V +RR + G ++ Y+N + V+
Sbjct: 72 FVNSAEVTITFDNEDKELPIDDPEVSIRRRVYRGGDSEYYINGKDVTKK 120
>gnl|CDD|73035 cd03276, ABC_SMC6_euk, Eukaryotic SMC6 proteins; SMC proteins are
large (approximately 110 to 170 kDa), and each is
arranged into five recognizable domains. Amino-acid
sequence homology of SMC proteins between species is
largely confined to the amino- and carboxy-terminal
globular domains. The amino-terminal domain contains a
'Walker A' nucleotide-binding domain (GxxGxGKS/T, in
the single-letter amino-acid code), which by mutational
studies has been shown to be essential in several
proteins. The carboxy-terminal domain contains a
sequence (the DA-box) that resembles a 'Walker B'
motif, and a motif with homology to the signature
sequence of the ATP-binding cassette (ABC) family of
ATPases. The sequence homology within the
carboxy-terminal domain is relatively high within the
SMC1-SMC4 group, whereas SMC5 and SMC6 show some
divergence in both of these sequences. In eukaryotic
cells, the proteins are found as heterodimers of SMC1
paired with SMC3, SMC2 with SMC4, and SMC5 with SMC6
(formerly known as Rad18)..
Length = 198
Score = 40.6 bits (95), Expect = 0.001
Identities = 18/71 (25%), Positives = 35/71 (49%), Gaps = 4/71 (5%)
Query: 3 RLSIYNIVLIESLDIDFSAGLSILSGDTGSGKSILLDALILVTGGRGD----GGLVRRHA 58
+++ N + L I+F ++ + G+ GSGKS +L AL + GG+ G ++
Sbjct: 3 SITLKNFMCHRHLQIEFGPRVNFIVGNNGSGKSAILTALTIGLGGKASDTNRGSSLKDLI 62
Query: 59 EKGQVVAVFEI 69
+ G+ A +
Sbjct: 63 KDGESSAKITV 73
>gnl|CDD|73001 cd03242, ABC_RecF, RecF is a recombinational DNA repair ATPase
that maintains replication in the presence of DNA
damage. When replication is prematurely disrupted by
DNA damage, several recF pathway gene products play
critical roles processing the arrested replication
fork, allowing it to resume and complete its task.
This CD represents the nucleotide binding domain of
RecF. RecF belongs to a large superfamily of ABC
transporters involved in the transport of a wide
variety of different compounds including sugars, ions,
peptides, and more complex organic molecules. The
nucleotide binding domain shows the highest similarity
between all members of the family. ABC transporters
are a subset of nucleotide hydrolases with a signature
motif, Q-loop, and H-loop/switch region, in addition
to, the Walker A motif/P-loop and Walker B motif
commonly found in a number of ATP- and GTP-binding and
hydrolyzing proteins..
Length = 270
Score = 40.2 bits (94), Expect = 0.001
Identities = 23/83 (27%), Positives = 41/83 (49%), Gaps = 5/83 (6%)
Query: 1 MTRLSIYNIVLIESLDIDFSAGLSILSGDTGSGKSILLDALILVTGGRG-----DGGLVR 55
+ L + N L+++F G+++L G+ GK+ LL+A+ L+ G+ D L+R
Sbjct: 1 LKSLELRNFRNYAELELEFEPGVTVLVGENAQGKTNLLEAISLLATGKSHRTSRDKELIR 60
Query: 56 RHAEKGQVVAVFEISHLPALEIL 78
AE+ ++ AV E L
Sbjct: 61 WGAEEAKISAVLERQGGELALEL 83
>gnl|CDD|31767 COG1579, COG1579, Zn-ribbon protein, possibly nucleic acid-binding
[General function prediction only].
Length = 239
Score = 39.5 bits (92), Expect = 0.002
Identities = 37/187 (19%), Positives = 76/187 (40%), Gaps = 27/187 (14%)
Query: 228 IMDDFHKSSSPISVISSMLRRLERKSTEVPDLLQKSISFLNEAQENLSDAQHEIERSFSE 287
+M++ KS I + RLE + E+ L+K+ + L + L + E+E ++
Sbjct: 1 MMNNNLKSLLAIQKLDLEKDRLEPRIKEIRKALKKAKAELEALNKALEALEIELEDLENQ 60
Query: 288 IQYDAQELANIEERLFALRA---------MSRKYSVSIDQLPELAKKMEEDLAD------ 332
+ E+ I ER+ R ++ I E +E++LA+
Sbjct: 61 VSQLESEIQEIRERIKRAEEKLSAVKDERELRALNIEIQIAKERINSLEDELAELMEEIE 120
Query: 333 -----ISEGNEKVVSLERVLYEARQAYD-------RVAQDISTKRYQFAKMLEKNVMAEM 380
I + E++ LE+ L EA + Q++S+KR + + L+ +++E
Sbjct: 121 KLEKEIEDLKERLERLEKNLAEAEARLEEEVAEIREEGQELSSKREELKEKLDPELLSEY 180
Query: 381 PALKLEN 387
++
Sbjct: 181 ERIRKNK 187
>gnl|CDD|72999 cd03240, ABC_Rad50, The catalytic domains of Rad50 are similar to
the ATP-binding cassette of ABC transporters, but are
not associated with membrane-spanning domains. The
conserved ATP-binding motifs common to Rad50 and the
ABC transporter family include the Walker A and Walker
B motifs, the Q loop, a histidine residue in the switch
region, a D-loop, and a conserved LSGG sequence. This
conserved sequence, LSGG, is the most specific and
characteristic motif of this family and is thus known
as the ABC signature sequence..
Length = 204
Score = 39.4 bits (92), Expect = 0.003
Identities = 24/77 (31%), Positives = 38/77 (49%), Gaps = 10/77 (12%)
Query: 2 TRLSIYNIVLI-ESLDIDFSAGLSILSGDTGSGKSILLDALILVT---------GGRGDG 51
+LSI NI E +I+F + L+++ G G+GK+ +++AL GG D
Sbjct: 2 DKLSIRNIRSFHERSEIEFFSPLTLIVGQNGAGKTTIIEALKYALTGELPPNSKGGAHDP 61
Query: 52 GLVRRHAEKGQVVAVFE 68
L+R + QV FE
Sbjct: 62 KLIREGEVRAQVKLAFE 78
Score = 29.8 bits (67), Expect = 2.0
Identities = 26/87 (29%), Positives = 38/87 (43%), Gaps = 13/87 (14%)
Query: 429 SGGELSRFLLALKIVL----VDQGSIPTLVFDE----VDSG-IGGAVADAIGYRLKQLSK 479
SGGE + L +L I L + L DE +D I ++A+ I R Q K
Sbjct: 117 SGGE--KVLASLIIRLALAETFGSNCGILALDEPTTNLDEENIEESLAEIIEERKSQ--K 172
Query: 480 KIQLLAVTHAPQVAARADRHFLVYKTN 506
QL+ +TH ++ AD + V K
Sbjct: 173 NFQLIVITHDEELVDAADHIYRVEKDG 199
>gnl|CDD|34593 COG4988, CydD, ABC-type transport system involved in cytochrome bd
biosynthesis, ATPase and permease components [Energy
production and conversion / Posttranslational
modification, protein turnover, chaperones].
Length = 559
Score = 38.3 bits (89), Expect = 0.005
Identities = 45/175 (25%), Positives = 75/175 (42%), Gaps = 22/175 (12%)
Query: 361 ISTKRYQFAKMLEKNVMAEMPALKLENVCFTVNITSDKEDIS-PDGIDRVEFYVQTNRGE 419
+S Y FA + +N++ P E + ++ E + PDG+D T GE
Sbjct: 400 VSQNPYLFAGTIRENILLARPDASDEEIIAALDQAGLLEFVPKPDGLD-------TVIGE 452
Query: 420 NPGPLMKLASGGELSRFLLALKIVLVDQGSIPTLVFDEVDSGIGGAVADAIGYRLKQLSK 479
L SGG+ R LAL L+ S+ L+ DE + + I L++L+K
Sbjct: 453 GGAGL----SGGQAQR--LALARALLSPASL--LLLDEPTAHLDAETEQIILQALQELAK 504
Query: 480 KIQLLAVTHAPQVAARADR-----HFLVYKTNKPDDTQRIETYVA-VLTPQERRE 528
+ +L +TH + AA ADR + + + ++ + A +L QE R
Sbjct: 505 QKTVLVITHRLEDAADADRIVVLDNGRLVEQGTHEELSEKQGLYANLLKQQEGRR 559
>gnl|CDD|36214 KOG0996, KOG0996, KOG0996, Structural maintenance of chromosome
protein 4 (chromosome condensation complex Condensin,
subunit C) [Chromatin structure and dynamics, Cell cycle
control, cell division, chromosome partitioning].
Length = 1293
Score = 36.5 bits (84), Expect = 0.019
Identities = 38/222 (17%), Positives = 76/222 (34%), Gaps = 41/222 (18%)
Query: 176 QEQKSSSQDVEFLRFSIDELQALAVQPGEENELVVMRSKILKQERIAVELSSIMDDFHKS 235
QE+ + ++ L+ IDE+ VQ + D K
Sbjct: 878 QEKAAKKARIKELQNKIDEIGGEKVQAQK-------------------------DKVEKI 912
Query: 236 SSPISVISSMLRRLERKSTEVPDLLQKSISFLNEAQENLSDAQHEIERSFSEIQYDAQEL 295
+ + + + + +L + K AQ+ LS+ + EIE + E+ +EL
Sbjct: 913 NEQLDKLEADIAKLTVAIKTSDRNIAK-------AQKKLSELEREIEDTEKELDDLTEEL 965
Query: 296 ANIEERLFALRAMSRKYSVSI----DQLPELAKKMEEDLADISEGNEKVVSLERVLYEAR 351
+EE+ L ++ S+ +L +L ++E +E + + +E L
Sbjct: 966 KGLEEKAAELEKEYKEAEESLKEIKKELRDLKSELENIKKSENELKAERIDIENKLEAIN 1025
Query: 352 QAYDRVAQDIS-----TKRYQFAKMLEKNVMAEMPALKLENV 388
+ + I K+ M E E+ E +
Sbjct: 1026 GELNEIESKIKQPEKELKKLSLCNMTETRPQIELDVESPEEL 1067
Score = 29.5 bits (66), Expect = 2.4
Identities = 65/404 (16%), Positives = 134/404 (33%), Gaps = 67/404 (16%)
Query: 19 FSAGLSILSGDTGSGKSILLDALILVTGGRGD-------GGLVRRHAEKGQVVAVFEISH 71
F + + G GSGKS ++D+++ V G R L+ + + + H
Sbjct: 106 FHKSFTAIVGPNGSGKSNVIDSMLFVFGFRASKIRSKKLSALIHKSDGHPNLQSCSVEVH 165
Query: 72 LPALEILFAEANLTL-EKHVILRRVQFPDGRTKAYVNDQVVSVNFMRAVGSLLIEIHSQH 130
+ + + + R F D +K Y+N + S V LL
Sbjct: 166 FQKIIDKPGGTYEVVPDSEFTITRTAFRDNSSKYYINGKEASFK---DVTKLLKSHGIDL 222
Query: 131 ADRSLLDVQG---------------HRKILDSY-----------ADIDLSLCELGTLYRH 164
L +QG + + + Y I+ + + L
Sbjct: 223 EHNRFLILQGEVEQIAMMKPKAQTENDEGMLEYLEDIIGTNRYKEPIEELMRRVERLNED 282
Query: 165 WCCTADALKKYQEQKSSSQD--VEFLRFSIDELQALAVQP-GEENELVVMRSKILKQ--- 218
+ +K +++K + + E L F E + + + L R+KI +
Sbjct: 283 RSEKENRVKLVEKEKKALEGPKNEALEFLKKENELFRKKNKLCQYILYESRAKIAEMQEE 342
Query: 219 -ERIAVELSSIMDDFHKSSSPISVISSMLRRLERKSTEVPDLLQKSISFLNEAQENLSD- 276
E+I L + F S + + + E E+ + ++ + ++ D
Sbjct: 343 LEKIEEGLKDENEKFDIES------NEEVEKNEAVKKEIKERAKELKNKFESLKKKFQDL 396
Query: 277 ------AQHEIERSFSEIQYDAQELANIEERLFALRAMSRKYSVSIDQLPELAKKMEEDL 330
+ +++R S+I+ +E+ + L K + I +K + ++
Sbjct: 397 EREDVKREEKLKRLTSKIKKLEKEIEKARRKKSELEKAPEKARIEI-------QKCQTEI 449
Query: 331 ADISEGNEKVVSLERVLYEARQAYDRVAQDISTKRYQFAKMLEK 374
+ E EK ER L E + + + I + + K L
Sbjct: 450 EQLEELLEK---EERELDEILDSLKQETEGIREEIEKLEKELMP 490
>gnl|CDD|35471 KOG0250, KOG0250, KOG0250, DNA repair protein RAD18 (SMC family
protein) [Replication, recombination and repair].
Length = 1074
Score = 35.7 bits (82), Expect = 0.034
Identities = 16/39 (41%), Positives = 23/39 (58%)
Query: 13 ESLDIDFSAGLSILSGDTGSGKSILLDALILVTGGRGDG 51
+L I+F ++ + G+ GSGKS +L AL L GGR
Sbjct: 54 SNLLIEFGPRVNFIVGNNGSGKSAILTALTLGLGGRASA 92
Score = 35.3 bits (81), Expect = 0.047
Identities = 52/293 (17%), Positives = 108/293 (36%), Gaps = 20/293 (6%)
Query: 172 LKKYQEQKSSSQDVEFLRFSIDELQALA--VQPGEENELVVMRSKILKQERIAVELSSIM 229
KK +E + +E L+ ++ ++ A ++ ++ +I K + + EL
Sbjct: 744 KKKEKEIEEKEAPLEKLKEELEHIELEAQELEEYYAAGREKLQGEISKLDALKEELKLRE 803
Query: 230 DDFHKSSSPISVISSMLRRLERKSTEVPDLLQKSISFLNEA---QENLSDAQHEIERSFS 286
D S ++ + + +L QK + +N E A+ E
Sbjct: 804 DKLR------SAEDEKRHYEDKLKSRLEELKQKEVEKVNLEEPRAEEDQKARTECPEEGI 857
Query: 287 EIQYDAQELANIEERLFALRAMSRKYSVSIDQLPELAKKMEEDLADISEGNEKVVSLERV 346
EI+ + +A I+ + L+ + S+ +L EL + + E ++ + +E V+L+ +
Sbjct: 858 EIEALGKTVAEIKREIKRLKRQIQMCEESLGELEELHRGLHEARKELKKEDELKVTLDEL 917
Query: 347 LYEARQAYDRVAQDISTKRYQFAKMLEKNVMAEMPALKLENVCFTVNITSDKEDISPDGI 406
L +A + Q R + + A L + +++ +S
Sbjct: 918 LKALGEALESREQKYQKFRKLLTRRATEEFDA---LLGKRGFSGKLEFDHEEKTLSI--- 971
Query: 407 DRVEFYVQTNRGENPGPLMKLASGGELSRFLLALKIVLVDQGSIPTLVFDEVD 459
+ T+ E + SGGE S + L + L + P DE D
Sbjct: 972 ---SVKLPTSGNEKAVRDTRGLSGGERSFSTVCLLLSLWEVMECPFRALDEFD 1021
>gnl|CDD|36197 KOG0979, KOG0979, KOG0979, Structural maintenance of chromosome
protein SMC5/Spr18, SMC superfamily [Chromatin structure
and dynamics, Cell cycle control, cell division,
chromosome partitioning, Replication, recombination and
repair].
Length = 1072
Score = 35.7 bits (82), Expect = 0.036
Identities = 64/411 (15%), Positives = 145/411 (35%), Gaps = 54/411 (13%)
Query: 3 RLSIYNIVLIESLDIDFSAGLSILSGDTGSGKSILLDALILVTGGR----GDGGLVRRHA 58
R+ ++N + + + L+++ G GSGKS ++ A+ L GG+ G V +
Sbjct: 24 RIELHNFLTYDHTEFLPGPSLNMIIGPNGSGKSSIVCAICLGLGGKPKLLGRAKKVGEYI 83
Query: 59 EKGQVVAVFEISHLPALEILFAEANLTLEKHVILRRVQFPDGRTKAYVNDQVVS----VN 114
++G+ EI E+ + LT+ + + D +K ++ND +
Sbjct: 84 KRGEDEGYIEI------ELKDKDETLTITRLISR------DKESKYFINDSATTKSEIEE 131
Query: 115 FMRAVG------------------------SLLIEIHSQHADRSLLDVQGHRKILDSYAD 150
+ LL+E LL H +++D D
Sbjct: 132 LVAHFNIQIDNLCQFLPQDKVKEFARLSPIELLVETEKAIGAEELLQY--HIELMDLRED 189
Query: 151 IDLSLCELGTLYRHWCCTADALKKYQEQKSSSQDVEFLRFSIDELQALAVQPGEENELVV 210
+L T D + K ++ ++ E + I+ L+ + E +
Sbjct: 190 EKSLEDKLTTKTEKLNRLEDEIDKLEKDVERVRERERKKSKIELLEKK--KKWVEYKKHD 247
Query: 211 MRSKILKQ--ERIAVELSSIMDDFHKSSSPISVISSMLRRLERKSTEVPDLLQKSISFLN 268
KQ +R EL + + + S + K ++ L ++++ +
Sbjct: 248 REYNAYKQAKDRAKKELRKLEKEIKPIEDKKEELESEKKETRSKISQKQRELNEALAKVQ 307
Query: 269 EAQENLSDAQHEIERSFSEIQYDAQELANIEERLFALRAM--SRKYSVSIDQLPE-LAKK 325
E E L + + E+E ++++ + ++R+ + M + + + PE ++
Sbjct: 308 EKFEKLKEIEDEVEEKKNKLESLKKAAEKRQKRIEKAKKMILDAQAELQETEDPENPVEE 367
Query: 326 MEEDLADISEGNEKVVSLERVLYEARQ-AYDRVAQDISTKRYQFAKMLEKN 375
+E + ++ + + R +A Q ++ + KR
Sbjct: 368 DQEIMKEVLQKKSSKLRDSRQEIDAEQLKSQKLRDLENKKRKLKQNSDLNR 418
>gnl|CDD|39561 KOG4360, KOG4360, KOG4360, Uncharacterized coiled coil protein
[Function unknown].
Length = 596
Score = 35.5 bits (81), Expect = 0.037
Identities = 36/165 (21%), Positives = 58/165 (35%), Gaps = 11/165 (6%)
Query: 179 KSSSQDVEFLRFSIDELQALAVQPGEENELVVMRSKILKQERIAVELSSIMDDFHKSSSP 238
S+ F R ++ LQ EEN + ++ +LK E + E K
Sbjct: 148 VSNESRSAFQRELLEALQEKLKPLEEENTQLRSKAMLLKTETLTYEE--------KEQQL 199
Query: 239 ISVISSMLRRLERKSTEVPDLLQKSISFLNEAQENLSDAQHEIERSFSEIQYDAQELANI 298
LR ++ + LQ L+ QE S ++ +I+Y E
Sbjct: 200 YGDCVKELRDTNTQARSGQEELQSKTKELSRQQEENSKLLSQLVDLQKKIKYLRHE---K 256
Query: 299 EERLFALRAMSRKYSVSIDQLPELAKKMEEDLADISEGNEKVVSL 343
EE L+A +L EL K E + + E E++ L
Sbjct: 257 EELDEHLQAYKDAQRQLTAELEELEDKYAECMQMLHEAEEELKCL 301
>gnl|CDD|34784 COG5185, HEC1, Protein involved in chromosome segregation,
interacts with SMC proteins [Cell division and
chromosome partitioning].
Length = 622
Score = 34.7 bits (79), Expect = 0.068
Identities = 22/144 (15%), Positives = 61/144 (42%)
Query: 225 LSSIMDDFHKSSSPISVISSMLRRLERKSTEVPDLLQKSISFLNEAQENLSDAQHEIERS 284
L + D+ ++ IS ++ L K + K +++N ++ + ++E+
Sbjct: 276 LKTQNDNLYEKIQEAMKISQKIKTLREKWRALKSDSNKYENYVNAMKQKSQEWPGKLEKL 335
Query: 285 FSEIQYDAQELANIEERLFALRAMSRKYSVSIDQLPELAKKMEEDLADISEGNEKVVSLE 344
SEI+ +E+ ++ + L RK +S +Q + ++ E+ ++ + N + L
Sbjct: 336 KSEIELKEEEIKALQSNIDELHKQLRKQGISTEQFELMNQEREKLTRELDKINIQSDKLT 395
Query: 345 RVLYEARQAYDRVAQDISTKRYQF 368
+ + + + + + Q+
Sbjct: 396 KSVKSRKLEAQGIFKSLEKTLRQY 419
>gnl|CDD|31327 COG1132, MdlB, ABC-type multidrug transport system, ATPase and
permease components [Defense mechanisms].
Length = 567
Score = 34.7 bits (79), Expect = 0.068
Identities = 25/95 (26%), Positives = 35/95 (36%), Gaps = 8/95 (8%)
Query: 404 DGIDRVEFYVQTNRGENPGPLMKLASGGELSRFLLALKIVLVDQGSIPTLVFDEVDSGIG 463
+ I + T GE L SGG+ R +A ++ P L+ DE S +
Sbjct: 446 EFIANLPDGYDTIVGERGVNL----SGGQRQRLAIARALLRNP----PILILDEATSALD 497
Query: 464 GAVADAIGYRLKQLSKKIQLLAVTHAPQVAARADR 498
I LK+L K L + H ADR
Sbjct: 498 TETEALIQDALKKLLKGRTTLIIAHRLSTIKNADR 532
>gnl|CDD|72998 cd03239, ABC_SMC_head, The structural maintenance of chromosomes
(SMC) proteins are essential for successful chromosome
transmission during replication and segregation of the
genome in all organisms. SMCs are generally present as
single proteins in bacteria, and as at least six
distinct proteins in eukaryotes. The proteins range in
size from approximately 110 to 170 kDa, and each has
five distinct domains: amino- and carboxy-terminal
globular domains, which contain sequences characteristic
of ATPases, two coiled-coil regions separating the
terminal domains , and a central flexible hinge. SMC
proteins function together with other proteins in a
range of chromosomal transactions, including chromosome
condensation, sister-chromatid cohesion, recombination,
DNA repair, and epigenetic silencing of gene
expression..
Length = 178
Score = 34.5 bits (79), Expect = 0.079
Identities = 21/84 (25%), Positives = 38/84 (45%), Gaps = 1/84 (1%)
Query: 426 KLASGGELSRFLLALKIVLVDQGSIPTLVFDEVDSGIGGAVADAIGYRLKQLSKKI-QLL 484
++ SGGE S LAL L + P V DE+D+ + + +K+++K Q +
Sbjct: 93 QILSGGEKSLSALALIFALQEIKPSPFYVLDEIDAALDPTNRRRVSDMIKEMAKHTSQFI 152
Query: 485 AVTHAPQVAARADRHFLVYKTNKP 508
+T ++ AD+ V +
Sbjct: 153 VITLKKEMFENADKLIGVLFVHGV 176
Score = 33.3 bits (76), Expect = 0.18
Identities = 18/66 (27%), Positives = 28/66 (42%), Gaps = 11/66 (16%)
Query: 17 IDFSAGLSILSGDTGSGKSILLDALILVTGGR-----------GDGGLVRRHAEKGQVVA 65
+ S + + G GSGKS ++DA+ V GG+ GG V+ V
Sbjct: 18 VGGSNSFNAIVGPNGSGKSNIVDAICFVLGGKAAKLRRGSLLFLAGGGVKAGINSASVEI 77
Query: 66 VFEISH 71
F+ S+
Sbjct: 78 TFDKSY 83
>gnl|CDD|34155 COG4477, EzrA, Negative regulator of septation ring formation [Cell
division and chromosome partitioning].
Length = 570
Score = 34.5 bits (79), Expect = 0.083
Identities = 29/151 (19%), Positives = 60/151 (39%), Gaps = 6/151 (3%)
Query: 205 ENELVVMRSKILKQERIAVELSSIMDDFHKSSSPISVISSMLRRLERKSTEVPDLLQKSI 264
E EL +R + + + L I+++ S + L +E+ T++ D +K
Sbjct: 343 ETELGSVRKFEKELKELESVLDEILENIEAQEVAYSELQDNLEEIEKALTDIEDEQEKVQ 402
Query: 265 SFLNEAQENLSDAQHEIERSFSEIQYDAQ-----ELANIEERLFALRA-MSRKYSVSIDQ 318
L +++ +A+ +ER S++ + L + E +L + + +
Sbjct: 403 EHLTSLRKDELEARENLERLKSKLHEIKRYMEKSNLPGLPETFLSLFFTAGHEIQDLMKE 462
Query: 319 LPELAKKMEEDLADISEGNEKVVSLERVLYE 349
L E+ ME A + E + +LE E
Sbjct: 463 LSEVPINMEAVSALVDIATEDMNTLEDETEE 493
Score = 29.8 bits (67), Expect = 2.2
Identities = 20/87 (22%), Positives = 40/87 (45%), Gaps = 9/87 (10%)
Query: 295 LANIEERLFALRAMSRKYSV-----SIDQLPELAKKMEEDLADISEGNEKVVSLER---- 345
A++EE LF A++ K+ ID + + +EED+ I E ++V E
Sbjct: 80 FADVEEHLFEAEALADKFRFNKAKHEIDDIEQQLTLIEEDIEQILEDLNELVESEEKNSE 139
Query: 346 VLYEARQAYDRVAQDISTKRYQFAKML 372
+ + Y+ + +D+ R+Q+ +
Sbjct: 140 EIDHVLELYEELRRDVLANRHQYGEAA 166
>gnl|CDD|31318 COG1121, ZnuC, ABC-type Mn/Zn transport systems, ATPase component
[Inorganic ion transport and metabolism].
Length = 254
Score = 34.0 bits (78), Expect = 0.095
Identities = 28/116 (24%), Positives = 41/116 (35%), Gaps = 10/116 (8%)
Query: 429 SGGELSRFLLALKIVLVDQGSIPTLVFDEVDSGIGGAVADAIGYRLKQLSKK-IQLLAVT 487
SGG+ R LLA L + L+ DE +G+ A I LK+L ++ +L VT
Sbjct: 141 SGGQKQRVLLAR--ALAQNPDL--LLLDEPFTGVDVAGQKEIYDLLKELRQEGKTVLMVT 196
Query: 488 HAP-QVAARADRHFLVYKT----NKPDDTQRIETYVAVLTPQERREEIARMLAGSH 538
H V A DR + + P++ E H
Sbjct: 197 HDLGLVMAYFDRVICLNRHLIASGPPEEVLTEENLEKAFGGSLAHALAGYRHHHDH 252
>gnl|CDD|33393 COG3593, COG3593, Predicted ATP-dependent endonuclease of the OLD
family [DNA replication, recombination, and repair].
Length = 581
Score = 33.4 bits (76), Expect = 0.15
Identities = 21/48 (43%), Positives = 28/48 (58%)
Query: 3 RLSIYNIVLIESLDIDFSAGLSILSGDTGSGKSILLDALILVTGGRGD 50
R+ I N I L ++F GL++L G+ SGKS LLDAL L+ D
Sbjct: 5 RVKIKNFRGINRLSLEFEEGLNVLIGENNSGKSSLLDALRLLLDPESD 52
Score = 28.4 bits (63), Expect = 5.1
Identities = 8/38 (21%), Positives = 14/38 (36%)
Query: 474 LKQLSKKIQLLAVTHAPQVAARADRHFLVYKTNKPDDT 511
L L +Q + TH+P + + AD +
Sbjct: 326 LNNLPLGLQRIVTTHSPHLLSLADLDSICRLVRVSSRV 363
>gnl|CDD|36151 KOG0933, KOG0933, KOG0933, Structural maintenance of chromosome
protein 2 (chromosome condensation complex Condensin,
subunit E) [Chromatin structure and dynamics, Cell cycle
control, cell division, chromosome partitioning].
Length = 1174
Score = 33.0 bits (75), Expect = 0.20
Identities = 33/165 (20%), Positives = 62/165 (37%), Gaps = 11/165 (6%)
Query: 177 EQKSSSQDVEFLRFSIDELQALAVQPGEENELVVMRSKILKQERI----AVELSSIMDDF 232
E K S E R GEE +L +R I + + ++ + + +
Sbjct: 300 EDKLDSLQNEITREETSLNLKKETLNGEEEKLEEIRKNIEEDRKKLKEKEKAMAKVEEGY 359
Query: 233 HKSSSPISVISSMLRRLERKSTEVPDLLQKS-------ISFLNEAQENLSDAQHEIERSF 285
K S +L + E + L + L +A+ LS+A EI+++
Sbjct: 360 EKLKEAFQEDSKLLEKAEELVESLTAGLSSNEDEEKTLEDQLRDAKITLSEASTEIKQAK 419
Query: 286 SEIQYDAQELANIEERLFALRAMSRKYSVSIDQLPELAKKMEEDL 330
++++ +EL E L A K +D L +K+++ L
Sbjct: 420 LKLEHLRKELKLREGELATASAEYVKDIEELDALQNEVEKLKKRL 464
Score = 29.5 bits (66), Expect = 2.2
Identities = 64/342 (18%), Positives = 130/342 (38%), Gaps = 26/342 (7%)
Query: 176 QEQKSSSQDVEFLRFSIDELQALAVQPGEENELVVMRSKILKQERIAVELSSIMDDFHKS 235
+E S Q +E L I L ++EL + +K+ K E+ + + + D
Sbjct: 829 KEISSLKQQLEQLEKQISSL---------KSELGNLEAKVDKVEKDVKKAQAELKDQKAK 879
Query: 236 SSPIS-VISSMLRRLERKSTEVPDL---LQKSISFLNEAQENLSDAQHEIERSFSEIQYD 291
I IS +L E+ +E D +K + + + ++A+ E+E+ + ++
Sbjct: 880 QRDIDTEISGLLTSQEKCLSEKSDGELERKKLEHEVTKLESEKANARKEVEKLLKKHEWI 939
Query: 292 AQELANIEERLFALRAMSRKYSVSIDQLPELAKKMEEDLADISEGNEKVVSL----ERVL 347
E ++ S + ++L +L +K E+ + N K + + E
Sbjct: 940 GDEKRLFGKKGTDYDFESYDPHEAREELKKLQEKKEKLEKTV---NPKNMDMLERAEEKE 996
Query: 348 YEARQAYDRVAQDISTKRYQFAKMLEKNVMAEMPALKLENVCF-----TVNITSDKEDIS 402
+ + + +D S + K+ EK A + N F T+ + +
Sbjct: 997 AALKTKKEIIEKDKSKIKKTIEKLDEKKREELNKAWEKVNKDFGSIFSTLLPGAMAKLEP 1056
Query: 403 PDGIDRVEFY-VQTNRGENPGPLMKLASGGELSRFLLALKIVLVDQGSIPTLVFDEVDSG 461
P+G ++ V+ G + SGG+ S L+L + ++ P + DEVD+
Sbjct: 1057 PEGKTVLDGLEVKVKFGGIWKESLSELSGGQRSLVALSLILAMLKFKPAPLYILDEVDAA 1116
Query: 462 IGGAVADAIGYRLKQLSKKIQLLAVTHAPQVAARADRHFLVY 503
+ + IG +K Q + V+ + A+ F
Sbjct: 1117 LDLSHTQNIGRMIKTHFTHSQFIVVSLKEGMFNNANVLFRTR 1158
>gnl|CDD|72987 cd03228, ABCC_MRP_Like, The MRP (Mutidrug Resistance Protein)-like
transporters are involved in drug, peptide, and lipid
export. They belong to the subfamily C of the
ATP-binding cassette (ABC) superfamily of transport
proteins. The ABCC subfamily contains transporters with
a diverse functional spectrum that includes ion
transport, cell surface receptor, and toxin secretion
activities. The MRP-like family, simlar to all ABC
proteins, have a common four-domain core structure
constituted by two membrane-spanning domains, each
composed of six transmembrane (TM) helices, and two
nucleotide-binding domains (NBD). ABC transporters are
a subset of nucleotide hydrolases that contain a
signature motif, Q-loop, and H-loop/switch region, in
addition to, the Walker A motif/P-loop and Walker B
motif commonly found in a number of ATP- and GTP-binding
and hydrolyzing proteins..
Length = 171
Score = 33.1 bits (76), Expect = 0.21
Identities = 19/70 (27%), Positives = 30/70 (42%), Gaps = 4/70 (5%)
Query: 429 SGGELSRFLLALKIVLVDQGSIPTLVFDEVDSGIGGAVADAIGYRLKQLSKKIQLLAVTH 488
SGG+ R +A+ L+ I L+ DE S + I L+ L+K ++ + H
Sbjct: 98 SGGQRQR--IAIARALLRDPPI--LILDEATSALDPETEALILEALRALAKGKTVIVIAH 153
Query: 489 APQVAARADR 498
ADR
Sbjct: 154 RLSTIRDADR 163
>gnl|CDD|73038 cd03279, ABC_sbcCD, SbcCD and other Mre11/Rad50 (MR) complexes
are implicated in the metabolism of DNA ends. They
cleave ends sealed by hairpin structures and are
thought to play a role in removing protein bound to DNA
termini..
Length = 213
Score = 32.1 bits (73), Expect = 0.36
Identities = 17/44 (38%), Positives = 25/44 (56%), Gaps = 5/44 (11%)
Query: 3 RLSIYNI-VLIESLDIDFS----AGLSILSGDTGSGKSILLDAL 41
+L + N E IDF+ GL ++ G TG+GKS +LDA+
Sbjct: 5 KLELKNFGPFREEQVIDFTGLDNNGLFLICGPTGAGKSTILDAI 48
>gnl|CDD|35470 KOG0249, KOG0249, KOG0249, LAR-interacting protein and related
proteins [General function prediction only].
Length = 916
Score = 32.0 bits (72), Expect = 0.39
Identities = 38/196 (19%), Positives = 84/196 (42%), Gaps = 10/196 (5%)
Query: 182 SQDVEFLRFSIDELQALAVQPGEENELVVMRSKILKQERIAVELSSIMDDFHKSSSPISV 241
+ + D +A+A + E + + + L +R E +SI D K + ++
Sbjct: 46 KAEEMNTKLQRDIREAMAQKEDMEERITTLEKRFLNAQR---ESTSIHDLNDKLENELAN 102
Query: 242 ISSMLRRLERKSTEVPDLLQKSISFLNE--AQENLSDAQHEIERSFSEIQYDAQELANIE 299
+ LR+ E K+ + + L+ + L + E L + + E+ + + + + NIE
Sbjct: 103 KDADLRQNEEKNRSLQERLELAEPKLQQSLRAETLPEVEAELAQRNAALTKAEEHSGNIE 162
Query: 300 ERLFALRAMSRKYSVSIDQLPELAKKMEED---LADISEGNEKVVSLERVLYEARQAYDR 356
ER L + + + + + K EE L+D + ++ ER+ A + +R
Sbjct: 163 ERTRKLEEQLEELNAELQRARQREKMNEEHNKRLSDTVDERLQLHLKERM--AALEDKNR 220
Query: 357 VAQDISTKRYQFAKML 372
+ Q++ + + Q +M
Sbjct: 221 LEQELESVKKQLEEMR 236
>gnl|CDD|35464 KOG0243, KOG0243, KOG0243, Kinesin-like protein [Cytoskeleton].
Length = 1041
Score = 32.3 bits (73), Expect = 0.40
Identities = 53/322 (16%), Positives = 122/322 (37%), Gaps = 25/322 (7%)
Query: 172 LKKYQEQKSSSQDV-EFLRFSIDELQALAVQPGEENELVVMRSKILKQERIAVELSSIMD 230
LK E + ++ E L+ ++L++ + EL ++ ++ + + E I+
Sbjct: 464 LKDLTELYMNQLEIKELLKEEKEKLKSKLQN--KNKELESLKEELQQAKATLKEEEEIIS 521
Query: 231 DFHKSSSPISVISSMLRRLERKST-EVPDLLQKSISFLNEAQENLSDAQHEIERSFSEIQ 289
KS + ++ LRR +S ++ L +K +N
Sbjct: 522 QQEKSEEKLVDRATKLRRSLEESQDDLSSLFEKLDRKDRLDDDNQEVIDD---------- 571
Query: 290 YDAQELANIEERLFALRAMSRKYSVSIDQLPELAKKMEEDLADISEGNEKV---VSLERV 346
+ +Q N+ + + S + I QL + +ME L+ S+ E + +S +R
Sbjct: 572 FQSQLSENLSTLHGLVASSSSQQ---ISQLTTMLAQMESFLSAKSKATEIMKTKISKDRD 628
Query: 347 LY-EARQAYDRVAQDISTKRYQFAKMLEKNVMAEMPALKLENVCFTVNITSDK--EDISP 403
+ E ++ ++ + + +++ ++ + +LE++ T+ T+D ++IS
Sbjct: 629 ILSEVLESLQQLQEVLKKDSESCLEVINSSITSS--INELESMLETIANTADDLLQNISS 686
Query: 404 DGIDRVEFYVQTNRGENPGPLMKLASGGELSRFLLALKIVLVDQGSIPTLVFDEVDSGIG 463
++ E E ++ S ELS L +Q T +F E + +
Sbjct: 687 RLSNQQEILSLFANQELQELVLSQDSAQELSELTSTFFQTLDNQAEKLTNLFSEANISLS 746
Query: 464 GAVADAIGYRLKQLSKKIQLLA 485
++ + QL+
Sbjct: 747 QKLSSFQKKFESIAEDEKQLVE 768
>gnl|CDD|37484 KOG2273, KOG2273, KOG2273, Membrane coat complex Retromer, subunit
VPS5/SNX1, Sorting nexins, and related PX
domain-containing proteins [Intracellular trafficking,
secretion, and vesicular transport].
Length = 503
Score = 32.0 bits (72), Expect = 0.44
Identities = 34/215 (15%), Positives = 90/215 (41%), Gaps = 13/215 (6%)
Query: 172 LKKYQEQKSSSQDVEFLRFSIDELQALAVQPGEENELVVMRSKILKQERIAVELSSIMDD 231
L +++ K S ++ + ID+L+ + ++ + +V + EL+S + +
Sbjct: 263 LPSFKKFKESDKEFTEKKEKIDKLEQQLKKLSKQVQRLV---------KRRRELASNLAE 313
Query: 232 FHKSSSPISVISSMLRRLERKSTEVPDLLQKSISFLNEAQENLSDAQHEIERSFSEIQYD 291
K+ + +S + L + + + +S+S L E D++ E+ I+Y
Sbjct: 314 LGKALAQLSALEGETDELSEALSGLAKV-IESLSKLLEKLTAEKDSKKLAEQLREYIRYL 372
Query: 292 AQELANIEERLFALRAMSRKYSVSIDQLPELAKKMEEDLADISEGNEKVVSLERVLYEAR 351
+ E+R AL+ + + E K+++ S G +K+ E+ + +
Sbjct: 373 ESVKSLFEQRSKALQKLQEAQRE-LSSKKEQLSKLKKKN-RSSFGFDKIDLAEKEIEKLE 430
Query: 352 QAYDRVAQDISTKRYQFAKMLEKNVMAEMPALKLE 386
+ + + + ++ K + + + + + AE+ +
Sbjct: 431 EKVNELEELLALKELELDE-ISERIRAELERFEES 464
>gnl|CDD|32260 COG2077, Tpx, Peroxiredoxin [Posttranslational modification,
protein turnover, chaperones].
Length = 158
Score = 32.1 bits (73), Expect = 0.44
Identities = 14/64 (21%), Positives = 25/64 (39%), Gaps = 12/64 (18%)
Query: 130 HADRSLLDVQGHRKILDSYADIDLSLCELGTLYRHWCCTADALKKYQEQKSSSQDVEFLR 189
D SL D G +K++ + ID +C +K+ E+ + + L
Sbjct: 34 LNDVSLADFAGKKKVISVFPSIDTPVCATQV------------RKFNEEAAKLGNTVVLC 81
Query: 190 FSID 193
S+D
Sbjct: 82 ISMD 85
>gnl|CDD|36194 KOG0976, KOG0976, KOG0976, Rho/Rac1-interacting serine/threonine
kinase Citron [Signal transduction mechanisms].
Length = 1265
Score = 32.0 bits (72), Expect = 0.46
Identities = 46/226 (20%), Positives = 99/226 (43%), Gaps = 22/226 (9%)
Query: 170 DALKKYQEQKSSSQDVEFLRFSIDELQALAVQPGEENELVVMRSKILKQERIAV---ELS 226
D K+ + ++ QD+ R ++ E +L + G +++ +SK + + + +++
Sbjct: 38 DLKKRLLDAENIIQDLRSERDALHE--SLVDKAGLNESVIIEQSKKVSTQETRIYRRDVN 95
Query: 227 SIMDDFHKSSSPISVISSMLRRLERKSTEVPDLLQKSISFLNEAQ---ENLSDAQHEIER 283
+ DD S I ++ + RLE + ++ D +Q + E + ENL+ H++E
Sbjct: 96 LLEDDLKHHESQIRILQNKCLRLEMEKQKLQDTIQGAQDDKKENEIEIENLNSRLHKLED 155
Query: 284 SFS----EIQYDAQELANIEERLFALRA-MSRKYSVSIDQLPELAKKMEEDLADISEGNE 338
S +I ++L + E L K + + + L +K+E+ D+ E ++
Sbjct: 156 ELSAKAHDIFMIGEDLHDKNEELNEFNMEFQTKLAEANREKKALEEKLEKFKEDLIEKDQ 215
Query: 339 KVVSL-------ERVLYEARQAYDRVAQDISTKRYQFAKMLEKNVM 377
K + L ++VL E Q + + T + M+E+ M
Sbjct: 216 KSLELHKDQENTQKVLKEVMQLSSQ--KQTLTPLRKTCSMIEEQDM 259
>gnl|CDD|34522 COG4913, COG4913, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 1104
Score = 32.0 bits (72), Expect = 0.51
Identities = 15/50 (30%), Positives = 31/50 (62%), Gaps = 2/50 (4%)
Query: 1 MTRLSIYNIVLIESLDIDFSAGLSILSGDTGSGKSILLDAL--ILVTGGR 48
++R+ + N ++DI + +++G +GSGKS L+DA+ +L+ G+
Sbjct: 17 LSRIQLINWGTFHTVDIPVTREGILVTGGSGSGKSTLIDAITAVLLPQGK 66
>gnl|CDD|34256 COG4637, COG4637, Predicted ATPase [General function prediction
only].
Length = 373
Score = 31.9 bits (72), Expect = 0.54
Identities = 17/66 (25%), Positives = 31/66 (46%), Gaps = 2/66 (3%)
Query: 1 MTRLSIYNIVLIESLDIDFSAGLSILSGDTGSGKSILLDALILVTGGRGDGGLVRRHAEK 60
+ + + N SLD++ ++++ G G+GKS DAL L+ G L + +
Sbjct: 3 LVSIKVKNYRSFRSLDLEIR-RVNVIIGANGAGKSNFYDALRLL-ADAVRGNLQQALQRE 60
Query: 61 GQVVAV 66
G + V
Sbjct: 61 GGLNEV 66
>gnl|CDD|114288 pfam05557, MAD, Mitotic checkpoint protein. This family consists
of several eukaryotic mitotic checkpoint (Mitotic arrest
deficient or MAD) proteins. The mitotic spindle
checkpoint monitors proper attachment of the bipolar
spindle to the kinetochores of aligned sister chromatids
and causes a cell cycle arrest in prometaphase when
failures occur. Multiple components of the mitotic
spindle checkpoint have been identified in yeast and
higher eukaryotes. In S.cerevisiae, the existence of a
Mad1-dependent complex containing Mad2, Mad3, Bub3 and
Cdc20 has been demonstrated.
Length = 722
Score = 31.4 bits (71), Expect = 0.67
Identities = 49/238 (20%), Positives = 86/238 (36%), Gaps = 32/238 (13%)
Query: 169 ADALKKYQEQKSSSQDVEFLRFSIDELQALAVQPGEENELVVMRSKILKQERIAVELSSI 228
A L + E++ L + L+ L + E +K+LK + A L
Sbjct: 95 ASTLAENYERELDRN--LELEVRLKALEELEKKAENEAAEAEEEAKLLKDKLDAESLKLQ 152
Query: 229 MDDFHKSSSPISVISSMLRRLERKSTEVPDLLQKSISFLNEAQENLSDAQHEIERSFSEI 288
+ + IS + L +Q A L + E+E ++
Sbjct: 153 NEKEDQLKEAKESISRIKNDLSE--------MQCRAQ---NADTELKLLESELEELREQL 201
Query: 289 QYDAQELANIEERLFALR---AMSRKYSVSIDQLPELAKKMEEDLADISEGNEKVVSLER 345
+ +ELA E++L +L A S SV I L E K+ E+D + E+++ +
Sbjct: 202 EECQKELAEAEKKLQSLTSEQASSADNSVKIKHLEEELKRYEQDAEVVKSMKEQLLQIPE 261
Query: 346 VLYEARQAYDRVAQ----------------DISTKRYQFAKMLEKNVMAEMPALKLEN 387
+ E + + D+ ++ +F KM EK E+ KLEN
Sbjct: 262 LERELAALREENRKLRSMKEDNELLKEELEDLQSRLERFEKMREKLADLELEKEKLEN 319
>gnl|CDD|33919 COG4181, COG4181, Predicted ABC-type transport system involved in
lysophospholipase L1 biosynthesis, ATPase component
[Secondary metabolites biosynthesis, transport, and
catabolism].
Length = 228
Score = 31.4 bits (71), Expect = 0.70
Identities = 27/74 (36%), Positives = 33/74 (44%), Gaps = 6/74 (8%)
Query: 429 SGGELSRFLLALKIVLVDQGSIPTLVFDEVDSGIGGAVADAIGYRLKQLSKK--IQLLAV 486
SGGE R LA G L DE + A D I L L+++ L+ V
Sbjct: 148 SGGEQQRVALARAFA----GRPDVLFADEPTGNLDRATGDKIADLLFALNRERGTTLVLV 203
Query: 487 THAPQVAARADRHF 500
TH PQ+AAR DR
Sbjct: 204 THDPQLAARCDRQL 217
>gnl|CDD|39873 KOG4674, KOG4674, KOG4674, Uncharacterized conserved coiled-coil
protein [Function unknown].
Length = 1822
Score = 31.1 bits (70), Expect = 0.70
Identities = 39/238 (16%), Positives = 86/238 (36%), Gaps = 12/238 (5%)
Query: 134 SLLDVQGHRKILDSYADIDLSLCELG---TLYRHWCCTADALKKYQEQKSSSQDVEFLRF 190
L+DV +K+ D + E G + + EQ+ S +
Sbjct: 19 PLVDVDVFKKLPKKSKDFESLKDEDGKTEVNHEQQLSELEKKILRLEQRLSDLSRQAKLL 78
Query: 191 SIDELQALAVQPGEENELVVMRSKILKQERIAVELSSIMDDFHKSSSPISVISSMLRRLE 250
+ +E + +I + +L + + ++ LE
Sbjct: 79 RNELSDLRNELEQLSSERSNLSWEIDALKLENSQLRRAKSELQEQKR------QLMELLE 132
Query: 251 RKSTEVPDLLQKSISFLNEAQENLSDAQHEIERSFSEIQYDAQELANIEERLFALRAMSR 310
R+ E+ + L+ LN+ ++ + E+E E Q + EERL +++
Sbjct: 133 RQKAEL-EALESENKDLNDQLKSSTKTLSELEARLQETQSEDVSSQLKEERLEQEKSLLE 191
Query: 311 KYSVSIDQLPELAKKMEEDLADISEGNEKVVSLERVLYEARQAYDRVAQDISTKRYQF 368
+ + + EL+K E+ L+ E + +V LE L + +++ + + + + Q
Sbjct: 192 SENKWLSR--ELSKVNEKLLSLRREHSIEVEQLEEKLSDLKESLAELQEKNKSLKQQN 247
>gnl|CDD|33672 COG3883, COG3883, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 265
Score = 31.1 bits (70), Expect = 0.74
Identities = 18/75 (24%), Positives = 37/75 (49%)
Query: 258 DLLQKSISFLNEAQENLSDAQHEIERSFSEIQYDAQELANIEERLFALRAMSRKYSVSID 317
D +Q S L+E Q+ + Q+EIE ++I+ ++ +++ + +A +K I
Sbjct: 31 DKIQNQDSKLSELQKEKKNIQNEIESLDNQIEEIQSKIDELQKEIDQSKAEIKKLQKEIA 90
Query: 318 QLPELAKKMEEDLAD 332
+L E + +E L
Sbjct: 91 ELKENIVERQELLKK 105
>gnl|CDD|73033 cd03274, ABC_SMC4_euk, Eukaryotic SMC4 proteins; SMC proteins are
large (approximately 110 to 170 kDa), and each is
arranged into five recognizable domains. Amino-acid
sequence homology of SMC proteins between species is
largely confined to the amino- and carboxy-terminal
globular domains. The amino-terminal domain contains a
'Walker A' nucleotide-binding domain (GxxGxGKS/T, in the
single-letter amino-acid code), which by mutational
studies has been shown to be essential in several
proteins. The carboxy-terminal domain contains a
sequence (the DA-box) that resembles a 'Walker B' motif,
and a motif with homology to the signature sequence of
the ATP-binding cassette (ABC) family of ATPases. The
sequence homology within the carboxy-terminal domain is
relatively high within the SMC1-SMC4 group, whereas SMC5
and SMC6 show some divergence in both of these
sequences. In eukaryotic cells, the proteins are found
as heterodimers of SMC1 paired with SMC3, SMC2 with
SMC4, and SMC5 with SMC6 (formerly known as Rad18)..
Length = 212
Score = 31.0 bits (70), Expect = 0.91
Identities = 23/78 (29%), Positives = 36/78 (46%)
Query: 429 SGGELSRFLLALKIVLVDQGSIPTLVFDEVDSGIGGAVADAIGYRLKQLSKKIQLLAVTH 488
SGGE + LAL L P V DE+D+ + + +K+ +K Q + ++
Sbjct: 129 SGGEKTLSSLALVFALHHYKPTPLYVMDEIDAALDFRNVSIVANYIKERTKNAQFIVISL 188
Query: 489 APQVAARADRHFLVYKTN 506
+ ADR +YKTN
Sbjct: 189 RNNMFELADRLVGIYKTN 206
Score = 27.9 bits (62), Expect = 8.5
Identities = 12/30 (40%), Positives = 18/30 (60%)
Query: 19 FSAGLSILSGDTGSGKSILLDALILVTGGR 48
F S + G GSGKS ++D+++ V G R
Sbjct: 23 FHKSFSAIVGPNGSGKSNVIDSMLFVFGFR 52
>gnl|CDD|73005 cd03246, ABCC_Protease_Secretion, This family represents the ABC
component of the protease secretion system PrtD, a
60-kDa integral membrane protein sharing 37% identity
with HlyB, the ABC component of the alpha-hemolysin
secretion pathway, in the C-terminal domain. They
export degradative enzymes by using a type I protein
secretion system and lack an N-terminal signal peptide,
but contain a C-terminal secretion signal. The Type I
secretion apparatus is made up of three components, an
ABC transporter, a membrane fusion protein (MFP), and an
outer membrane protein (OMP). For the HlyA transporter
complex, HlyB (ABC transporter) and HlyD (MFP) reside in
the inner membrane of E. coli. The OMP component is
TolC, which is thought to interact with the MFP to form
a continuous channel across the periplasm from the
cytoplasm to the exterior. HlyB belongs to the family
of ABC transporters, which are ubiquitous, ATP-dependent
transmembrane pumps or channels. The spectrum of
transport substrates ranges from inorganic ions,
nutrients such as amino acids, sugars, or peptides,
hydrophobic drugs, to large polypeptides, such as HlyA..
Length = 173
Score = 30.5 bits (69), Expect = 1.2
Identities = 21/71 (29%), Positives = 29/71 (40%), Gaps = 5/71 (7%)
Query: 429 SGGELSRFLLALKIVLVDQGSIPTLVFDEVDSGIGGAVADAIGYRLKQLSKK-IQLLAVT 487
SGG+ R LA L I LV DE +S + A+ + L + +
Sbjct: 98 SGGQRQRLGLAR--ALYGNPRI--LVLDEPNSHLDVEGERALNQAIAALKAAGATRIVIA 153
Query: 488 HAPQVAARADR 498
H P+ A ADR
Sbjct: 154 HRPETLASADR 164
>gnl|CDD|72982 cd03223, ABCD_peroxisomal_ALDP, Peroxisomal ATP-binding cassette
transporter (Pat) is involved in the import of very
long-chain fatty acids (VLCFA) into the peroxisome.
The peroxisomal membrane forms a permeability barrier
for a wide variety of metabolites required for and
formed during fatty acid beta-oxidation. To
communicate with the cytoplasm and mitochondria,
peroxisomes need dedicated proteins to transport such
hydrophilic molecules across their membranes. X-linked
adrenoleukodystrophy (X-ALD) is caused by mutations in
the ALD gene, which encodes ALDP (adrenoleukodystrophy
protein ), a peroxisomal integral membrane protein that
is a member of the ATP-binding cassette (ABC)
transporter protein family. The disease is
characterized by a striking and unpredictable variation
in phenotypic expression. Phenotypes include the
rapidly progressive childhood cerebral form (CCALD),
the milder adult form, adrenomyeloneuropathy (AMN), and
variants without neurologic involvement (i.e.
asymptomatic)..
Length = 166
Score = 30.5 bits (69), Expect = 1.2
Identities = 13/35 (37%), Positives = 20/35 (57%), Gaps = 1/35 (2%)
Query: 8 NIVLIESLDIDFSAGLSIL-SGDTGSGKSILLDAL 41
VL++ L + G +L +G +G+GKS L AL
Sbjct: 13 GRVLLKDLSFEIKPGDRLLITGPSGTGKSSLFRAL 47
>gnl|CDD|35284 KOG0061, KOG0061, KOG0061, Transporter, ABC superfamily (Breast
cancer resistance protein) [Secondary metabolites
biosynthesis, transport and catabolism].
Length = 613
Score = 30.3 bits (68), Expect = 1.4
Identities = 31/148 (20%), Positives = 53/148 (35%), Gaps = 35/148 (23%)
Query: 11 LIESLDIDFSAG-LSILSGDTGSGKSILLDAL-------------ILVTGGRGDGGLVRR 56
+++ + G L + G +GSGK+ LL+AL IL+ G D R+
Sbjct: 45 ILKGVSGTAKPGELLAIMGPSGSGKTTLLNALAGRLNGGLKLSGEILLNGRPRDSRSFRK 104
Query: 57 HAEKGQVVAVFEISHLPALEILFAEANLTLEKHVILRRVQFPDGRTKAYVNDQVVSVNFM 116
+ Q V + L E L A L L P +K ++
Sbjct: 105 ISGYVQQDDVL-LPTLTVRETLRFSALLRL-----------PSSLSKEEKRER------- 145
Query: 117 RAVGSLLIEIHSQHADRSLLDVQGHRKI 144
V ++ E+ + +L+ G R +
Sbjct: 146 --VEEVISELGLEKCADTLIGNPGIRGL 171
>gnl|CDD|73009 cd03250, ABCC_MRP_domain1, Domain 1 of the ABC subfamily C. This
family is also known as MRP (mulrtidrug
resisitance-associated protein). Some of the MRP
members have five additional transmembrane segments in
their N-terminas, but the function of these additional
membrane-spanning domains is not clear. The MRP was
found in the multidrug-resisting lung cancer cell in
which p-glycoprotein was not overexpressed. MRP exports
glutathione by drug stimulation, as well as, certain
substrates in conjugated forms with anions, such as
glutathione, glucuronate, and sulfate..
Length = 204
Score = 30.4 bits (69), Expect = 1.5
Identities = 12/33 (36%), Positives = 20/33 (60%), Gaps = 1/33 (3%)
Query: 11 LIESLDIDFSAG-LSILSGDTGSGKSILLDALI 42
++ ++++ G L + G GSGKS LL AL+
Sbjct: 20 TLKDINLEVPKGELVAIVGPVGSGKSSLLSALL 52
>gnl|CDD|35283 KOG0060, KOG0060, KOG0060, Long-chain acyl-CoA transporter, ABC
superfamily (involved in peroxisome organization and
biogenesis) [Lipid transport and metabolism, General
function prediction only].
Length = 659
Score = 30.3 bits (68), Expect = 1.6
Identities = 13/35 (37%), Positives = 23/35 (65%), Gaps = 1/35 (2%)
Query: 8 NIVLIESLDIDFSAGLSIL-SGDTGSGKSILLDAL 41
+LIE+L ++ +G ++L +G +G GK+ LL L
Sbjct: 447 GDLLIENLSLEVPSGQNLLITGPSGCGKTSLLRVL 481
>gnl|CDD|33697 COG3910, COG3910, Predicted ATPase [General function prediction
only].
Length = 233
Score = 30.3 bits (68), Expect = 1.6
Identities = 15/48 (31%), Positives = 28/48 (58%), Gaps = 2/48 (4%)
Query: 7 YNIVLIESLD--IDFSAGLSILSGDTGSGKSILLDALILVTGGRGDGG 52
+++ L+ ++F A ++ ++G+ GSGKS LL+A+ G GG
Sbjct: 21 FSLPAFRHLEERLEFRAPITFITGENGSGKSTLLEAIAAGMGFNAAGG 68
>gnl|CDD|34081 COG4372, COG4372, Uncharacterized protein conserved in bacteria
with the myosin-like domain [Function unknown].
Length = 499
Score = 30.1 bits (67), Expect = 1.8
Identities = 31/222 (13%), Positives = 68/222 (30%), Gaps = 12/222 (5%)
Query: 169 ADALKKYQEQKSSSQDVEFLRFSIDELQALAVQPGEENELVVMRSKILKQERIAV--ELS 226
E ++ + + ++ + +E E V +Q EL+
Sbjct: 81 PQLRALRTELGTAQGEKRAAETEREAARSELQKARQEREAVRQELAAARQNLAKAQQELA 140
Query: 227 SIMDDFHKSSSPISVISSMLRRLERKSTEV---PDLLQKSISFLNEAQENLSDAQHEIE- 282
+ + + ++ R+LE ++ + LQ S + L +L +IE
Sbjct: 141 RLTKQAQDLQTRLKTLAEQRRQLEAQAQSLQASQKQLQASATQLKSQVLDLKLRSAQIEQ 200
Query: 283 ------RSFSEIQYDAQELANIEERLFALRAMSRKYSVSIDQLPELAKKMEEDLADISEG 336
+ Q +ELA ++ I Q + E + +
Sbjct: 201 EAQNLATRANAAQARTEELARRAAAAQQTAQAIQQRDAQISQKAQQIAARAEQIRERERQ 260
Query: 337 NEKVVSLERVLYEARQAYDRVAQDISTKRYQFAKMLEKNVMA 378
+++ + + L + + Q R Q A V+A
Sbjct: 261 LQRLETAQARLEQEVAQLEAYYQAYVRLRQQAAATQRGQVLA 302
>gnl|CDD|31331 COG1136, SalX, ABC-type antimicrobial peptide transport system,
ATPase component [Defense mechanisms].
Length = 226
Score = 29.7 bits (67), Expect = 1.9
Identities = 25/76 (32%), Positives = 36/76 (47%), Gaps = 14/76 (18%)
Query: 429 SGGELSRFLLAL------KIVLVDQGSIPTLVFDEVDSGIGGAVADAIGYRLKQLSKKIQ 482
SGG+ R +A KI+L D+ PT +DS V + + K+ K I
Sbjct: 144 SGGQQQRVAIARALINNPKIILADE---PT---GNLDSKTAKEVLELLRELNKERGKTI- 196
Query: 483 LLAVTHAPQVAARADR 498
+ VTH P++A ADR
Sbjct: 197 -IMVTHDPELAKYADR 211
>gnl|CDD|35385 KOG0163, KOG0163, KOG0163, Myosin class VI heavy chain
[Cytoskeleton].
Length = 1259
Score = 29.6 bits (66), Expect = 2.1
Identities = 24/163 (14%), Positives = 52/163 (31%), Gaps = 12/163 (7%)
Query: 242 ISSMLRRLERKSTEVPDLLQKSISFLNEAQENLSDAQHEIERSFSEIQYDAQELANIEER 301
++S + ++ L E E L Q E + + + EE+
Sbjct: 894 MNSEYDVAVKNYEKLVKRLDSKEQQQIEELERLRKIQELAEAERKRREAEEKRRREEEEK 953
Query: 302 LFALRAMSRKYSVSIDQLPELAKKMEEDLADISEGNEKVVSLERVLYEARQAYDRVAQDI 361
A M E +K EE+ E E+ ++LE A++A + +
Sbjct: 954 KRAKAEM------------ETKRKAEEEQRKAQEEEERRLALELQEQLAKEAEEEAKRQN 1001
Query: 362 STKRYQFAKMLEKNVMAEMPALKLENVCFTVNITSDKEDISPD 404
++ + L + ++ + +D + P+
Sbjct: 1002 QLEQERRDHELALRLANSDGGQVEDSPPVIRALVNDASPMGPN 1044
>gnl|CDD|34592 COG4987, CydC, ABC-type transport system involved in cytochrome bd
biosynthesis, fused ATPase and permease components
[Energy production and conversion / Posttranslational
modification, protein turnover, chaperones].
Length = 573
Score = 29.8 bits (67), Expect = 2.2
Identities = 22/70 (31%), Positives = 31/70 (44%), Gaps = 4/70 (5%)
Query: 429 SGGELSRFLLALKIVLVDQGSIPTLVFDEVDSGIGGAVADAIGYRLKQLSKKIQLLAVTH 488
SGGE R LA + +L D P + DE G+ + L + ++ LL VTH
Sbjct: 476 SGGERRRLALA-RALLHDA---PLWLLDEPTEGLDPITERQVLALLFEHAEGKTLLMVTH 531
Query: 489 APQVAARADR 498
+ R DR
Sbjct: 532 RLRGLERMDR 541
>gnl|CDD|72971 cd00267, ABC_ATPase, ABC (ATP-binding cassette) transporter
nucleotide-binding domain; ABC transporters are a large
family of proteins involved in the transport of a wide
variety of different compounds, like sugars, ions,
peptides, and more complex organic molecules. The
nucleotide-binding domain shows the highest similarity
between all members of the family. ABC transporters
are a subset of nucleotide hydrolases that contain a
signature motif, Q-loop, and H-loop/switch region, in
addition to, the Walker A motif/P-loop and Walker B
motif commonly found in a number of ATP- and
GTP-binding and hydrolyzing proteins..
Length = 157
Score = 29.5 bits (66), Expect = 2.3
Identities = 17/78 (21%), Positives = 30/78 (38%), Gaps = 9/78 (11%)
Query: 3 RLSIYNIVLIESLDIDFSAG-LSILSGDTGSGKSILLDALIL---VTGGR-----GDGGL 53
++++ + AG + L G GSGKS LL A+ T G D
Sbjct: 6 SFRYGGRTALDNVSLTLKAGEIVALVGPNGSGKSTLLRAIAGLLKPTSGEILIDGKDIAK 65
Query: 54 VRRHAEKGQVVAVFEISH 71
+ + ++ V ++S
Sbjct: 66 LPLEELRRRIGYVPQLSG 83
>gnl|CDD|32455 COG2274, SunT, ABC-type bacteriocin/lantibiotic exporters, contain
an N-terminal double-glycine peptidase domain [Defense
mechanisms].
Length = 709
Score = 29.4 bits (66), Expect = 2.4
Identities = 17/70 (24%), Positives = 27/70 (38%), Gaps = 4/70 (5%)
Query: 429 SGGELSRFLLALKIVLVDQGSIPTLVFDEVDSGIGGAVADAIGYRLKQLSKKIQLLAVTH 488
SGG+ R LA ++ L+ DE S + I L Q+ + ++ + H
Sbjct: 611 SGGQRQRLALARALL----SKPKILLLDEATSALDPETEAIILQNLLQILQGRTVIIIAH 666
Query: 489 APQVAARADR 498
ADR
Sbjct: 667 RLSTIRSADR 676
>gnl|CDD|72994 cd03235, ABC_Metallic_Cations, ABC component of the metal-type
transporters. This family includes transporters
involved in the uptake of various metallic cations such
as iron, manganese, and zinc. The ATPases of this group
of transporters are very similar to members of
iron-siderophore uptake family suggesting that they
share a common ancestor. The best characterized
metal-type ABC transporters are the YfeABCD system of Y.
pestis, the SitABCD system of Salmonella enterica
serovar Typhimurium, and the SitABCD transporter of
Shigella flexneri. Moreover other uncharacterized
homologs of these metal-type transporters are mainly
found in pathogens like Haemophilus or enteroinvasive E.
coli isolates..
Length = 213
Score = 29.7 bits (67), Expect = 2.4
Identities = 25/79 (31%), Positives = 39/79 (49%), Gaps = 6/79 (7%)
Query: 429 SGGELSRFLLALKIVLVDQGSIPTLVFDEVDSGIGGAVADAIGYRLKQLSKK-IQLLAVT 487
SGG+ R LLA LV + L+ DE +G+ + I L++L ++ + +L VT
Sbjct: 134 SGGQQQRVLLAR--ALVQDPDL--LLLDEPFAGVDPKTQEDIYELLRELRREGMTILVVT 189
Query: 488 H-APQVAARADRHFLVYKT 505
H V DR L+ +T
Sbjct: 190 HDLGLVLEYFDRVLLLNRT 208
>gnl|CDD|34219 COG4581, COG4581, Superfamily II RNA helicase [DNA replication,
recombination, and repair].
Length = 1041
Score = 29.6 bits (66), Expect = 2.5
Identities = 19/103 (18%), Positives = 35/103 (33%), Gaps = 4/103 (3%)
Query: 272 ENLSDAQHEIERSFSEIQYDAQELANIE--ERLFALRAM--SRKYSVSIDQLPELAKKME 327
E L A+ +ERSF++ Q +E ERL + + + P+L+ E
Sbjct: 573 EGLQTAEDLLERSFAQFQNSRSLPEIVEKLERLEKELNDIATELFGTDENDAPKLSLDYE 632
Query: 328 EDLADISEGNEKVVSLERVLYEARQAYDRVAQDISTKRYQFAK 370
+ ++E + R L + R +
Sbjct: 633 KLRKKLNEEMRLQAAGLRALRKGRVVQIKDGLAALFWGRLLKL 675
>gnl|CDD|73014 cd03255, ABC_MJ0796_Lo1CDE_FtsE, This family is comprised of MJ0796
ATP-binding cassette, macrolide-specific ABC-type efflux
carrier (MacAB), and proteins involved in cell division
(FtsE), and release of liporoteins from the cytoplasmic
membrane (LolCDE). They are clustered together
phylogenetically. MacAB is an exporter that confers
resistance to macrolides, while the LolCDE system is not
a transporter at all. An FtsE null mutants showed
filamentous growth and appeared viable on high salt
medium only, indicating a role for FtsE in cell division
and/or salt transport. The LolCDE complex catalyses the
release of lipoproteins from the cytoplasmic membrane
prior to their targeting to the outer membrane..
Length = 218
Score = 29.3 bits (66), Expect = 2.5
Identities = 26/78 (33%), Positives = 40/78 (51%), Gaps = 18/78 (23%)
Query: 429 SGGELSRFLLAL------KIVLVDQGSIPTLVFDEVDSGIGGAVADAIGYRLKQLSKKIQ 482
SGG+ R +A KI+L D+ PT +DS G V + L++L+K+
Sbjct: 142 SGGQQQRVAIARALANDPKIILADE---PT---GNLDSETGKEVMEL----LRELNKEAG 191
Query: 483 --LLAVTHAPQVAARADR 498
++ VTH P++A ADR
Sbjct: 192 TTIVVVTHDPELAEYADR 209
>gnl|CDD|73032 cd03273, ABC_SMC2_euk, Eukaryotic SMC2 proteins; SMC proteins are
large (approximately 110 to 170 kDa), and each is
arranged into five recognizable domains. Amino-acid
sequence homology of SMC proteins between species is
largely confined to the amino- and carboxy-terminal
globular domains. The amino-terminal domain contains a
'Walker A' nucleotide-binding domain (GxxGxGKS/T, in the
single-letter amino-acid code), which by mutational
studies has been shown to be essential in several
proteins. The carboxy-terminal domain contains a
sequence (the DA-box) that resembles a 'Walker B' motif,
and a motif with homology to the signature sequence of
the ATP-binding cassette (ABC) family of ATPases. The
sequence homology within the carboxy-terminal domain is
relatively high within the SMC1-SMC4 group, whereas SMC5
and SMC6 show some divergence in both of these
sequences. In eukaryotic cells, the proteins are found
as heterodimers of SMC1 paired with SMC3, SMC2 with
SMC4, and SMC5 with SMC6 (formerly known as Rad18)..
Length = 251
Score = 29.4 bits (66), Expect = 2.5
Identities = 20/75 (26%), Positives = 33/75 (44%)
Query: 429 SGGELSRFLLALKIVLVDQGSIPTLVFDEVDSGIGGAVADAIGYRLKQLSKKIQLLAVTH 488
SGG+ S L+L + L+ P + DEVD+ + + IG +K K Q + V+
Sbjct: 168 SGGQRSLVALSLILALLLFKPAPMYILDEVDAALDLSHTQNIGRMIKTHFKGSQFIVVSL 227
Query: 489 APQVAARADRHFLVY 503
+ A+ F
Sbjct: 228 KEGMFNNANVLFRTR 242
>gnl|CDD|36147 KOG0929, KOG0929, KOG0929, Guanine nucleotide exchange factor
[Intracellular trafficking, secretion, and vesicular
transport].
Length = 1514
Score = 29.6 bits (66), Expect = 2.5
Identities = 27/114 (23%), Positives = 47/114 (41%), Gaps = 5/114 (4%)
Query: 202 PGEENELVVMRSKILKQERIAVELSSIMDDFHKSSSPISVISSMLR--RLERKSTEVPDL 259
E + MRSK+L E + L + F + I I L + + VP +
Sbjct: 284 SEESDTQSHMRSKLLSLELLKSILENSGSVFRSNEHFIDAIKQYLCLALSKNSVSNVPMV 343
Query: 260 LQKSISFLNEAQENL-SDAQHEIERSFSEIQYDAQEL--ANIEERLFALRAMSR 310
+ S + N + + EIE FSEI E ++ ++++ LR ++R
Sbjct: 344 FELSCTIFVSLLSNFRTHLKAEIEVFFSEIFLRILENNTSSFQQKMMVLRILTR 397
>gnl|CDD|73019 cd03260, ABC_PstB_phosphate_transporter, Phosphate uptake is of
fundamental importance in the cell physiology of
bacteria because phosphate is required as a nutrient.
The Pst system of E. coli comprises four distinct
subunits encoded by the pstS, pstA, pstB, and pstC
genes. The PstS protein is a phosphate-binding protein
located in the periplasmic space. P stA and PstC are
hydrophobic and they form the transmembrane portion of
the Pst system. PstB is the catalytic subunit, which
couples the energy of ATP hydrolysis to the import of
phosphate across cellular membranes through the Pst
system, often referred as ABC-protein. PstB belongs to
one of the largest superfamilies of proteins
characterized by a highly conserved adenosine
triphosphate (ATP) binding cassette (ABC), which is also
a nucleotide binding domain (NBD)..
Length = 227
Score = 29.4 bits (66), Expect = 3.0
Identities = 24/71 (33%), Positives = 35/71 (49%), Gaps = 5/71 (7%)
Query: 429 SGGELSRFLLALKIVLVDQGSIPTLVFDEVDSGIGGAVADAIGYRLKQLSKKIQLLAVTH 488
SGG+ R L L L ++ + L+ DE S + I + +L K+ ++ VTH
Sbjct: 143 SGGQQQR--LCLARALANEPEV--LLLDEPTSALDPISTAKIEELIAELKKEYTIVIVTH 198
Query: 489 APQVAAR-ADR 498
Q AAR ADR
Sbjct: 199 NMQQAARVADR 209
>gnl|CDD|114015 pfam05266, DUF724, Protein of unknown function (DUF724). This
family contains several uncharacterized proteins found
in Arabidopsis thaliana and other plants. This region is
often found associated with Agenet domains and may
contain coiled-coil.
Length = 190
Score = 29.3 bits (66), Expect = 3.1
Identities = 16/73 (21%), Positives = 36/73 (49%), Gaps = 6/73 (8%)
Query: 283 RSFSEIQ---YDAQELANIEERLFALRAMSRKYSVSIDQLPELAKKMEEDLADISEGNEK 339
+ FSE++ ++ Q L + +L +L+ K +++ L K++ E E + +
Sbjct: 76 KCFSELEKHGFNVQALQSRLNKLLSLKDDQTK---KLEERKGLEKEIAEKEISRQELDSE 132
Query: 340 VVSLERVLYEARQ 352
+ LER + E ++
Sbjct: 133 IAELERKILELQR 145
>gnl|CDD|109493 pfam00437, GSPII_E, 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 = 283
Score = 29.2 bits (66), Expect = 3.1
Identities = 12/21 (57%), Positives = 16/21 (76%)
Query: 22 GLSILSGDTGSGKSILLDALI 42
G ++SG TGSGK+ LL AL+
Sbjct: 140 GNILVSGGTGSGKTTLLYALL 160
>gnl|CDD|37755 KOG2544, KOG2544, KOG2544, Dihydropteroate
synthase/7,
8-dihydro-6-hydroxymethylpterin-
pyrophosphokinase/Dihydroneopterin aldolase [Coenzyme
transport and metabolism].
Length = 711
Score = 29.2 bits (65), Expect = 3.3
Identities = 19/72 (26%), Positives = 34/72 (47%), Gaps = 8/72 (11%)
Query: 458 VDSGIGGAV-----ADAIGY--RLKQLSKKIQLLAVTHAPQVAARADRHFLVYKTNKPDD 510
+D GIG A D I + ++++ K+ + ++HAP + + + FL T P+
Sbjct: 608 IDPGIGFAKTWKQNLDIIMHLPKIREEMAKVSI-NLSHAPILLGPSRKRFLGDITGDPEA 666
Query: 511 TQRIETYVAVLT 522
R VA +T
Sbjct: 667 KDRDAATVACVT 678
>gnl|CDD|35996 KOG0777, KOG0777, KOG0777, Geranylgeranyl pyrophosphate
synthase/Polyprenyl synthetase [Coenzyme transport and
metabolism].
Length = 322
Score = 29.3 bits (65), Expect = 3.3
Identities = 23/114 (20%), Positives = 45/114 (39%), Gaps = 7/114 (6%)
Query: 172 LKKYQEQKSSSQDVEFLRFSIDELQALAVQPGEENELVVMRSKILKQERIAVELSSIMDD 231
K+Y E KS ++D+ +FS + AL + E L ++R + + I I++D
Sbjct: 206 DKEYSENKSFAEDLTEGKFSFPIIHALKTKGQTEQVLRILRQRTSDID-IKKYCIQILED 264
Query: 232 FHKSSSPISVISSMLRRLERK------STEVPDLLQKSISFLNEAQENLSDAQH 279
+ + ++ ++ + +PDL + N E L H
Sbjct: 265 TGSFAYTRNFLNQLVAEARSMIKNDGENPYLPDLASHLDTATNLHDELLYIIDH 318
>gnl|CDD|39623 KOG4422, KOG4422, KOG4422, Uncharacterized conserved protein
[Function unknown].
Length = 625
Score = 28.9 bits (64), Expect = 3.3
Identities = 30/147 (20%), Positives = 54/147 (36%), Gaps = 13/147 (8%)
Query: 260 LQKSISFLNEAQENLSDAQHEIERSFSEI--QYDAQELANIEERLFALRAMSRKYSVS-- 315
++ S + D +++ + Y++ + E F + S S
Sbjct: 131 VKDSCILYERMRSENVDVSEKVQLELFRLVTYYNSSNVPFAEWEEFVGMRNFGEDSTSSW 190
Query: 316 -----IDQLPELAKKMEEDLADISEGNEKVVSLER---VLYEARQAYDRVAQDISTKRYQ 367
D L E K +E ++ + G K SLER + E R A +V ++
Sbjct: 191 KSGAVADLLFETLPKTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIG 250
Query: 368 FAKML-EKNVMAEMPALKLENVCFTVN 393
+ K ++AEM + K+ FT N
Sbjct: 251 ASSYSVGKKLVAEMISQKMTPNLFTFN 277
>gnl|CDD|144377 pfam00753, Lactamase_B, Metallo-beta-lactamase superfamily.
Length = 148
Score = 28.8 bits (64), Expect = 3.5
Identities = 10/32 (31%), Positives = 16/32 (50%)
Query: 458 VDSGIGGAVADAIGYRLKQLSKKIQLLAVTHA 489
+D+G+G A + L K I + +THA
Sbjct: 20 IDTGLGADDALLLLAALGLDPKDIDAIILTHA 51
>gnl|CDD|39384 KOG4182, KOG4182, KOG4182, Uncharacterized conserved protein
[Function unknown].
Length = 828
Score = 29.1 bits (64), Expect = 3.8
Identities = 42/240 (17%), Positives = 89/240 (37%), Gaps = 33/240 (13%)
Query: 173 KKYQEQKSSSQDVEFLRFSIDELQALAVQPGEENELVVMRSK--ILKQERIAVELSSIMD 230
K + E+ F D L + E + +S + + R A + +++
Sbjct: 22 KAFHEEDGRDDSEAAEAFIRDLEAKLQIAIEEIGAALEEQSGGALARMPRAAKDSAALQA 81
Query: 231 DFHKSSSPISVISSMLRRLERKSTEVPDLLQKSISFLNEAQENLSDAQHEIERS------ 284
D H+ ++ I L E +S + L + L+ ++ L A+ ++ +
Sbjct: 82 DAHRLQEKMAAILLELAAAEGESADCIAALAR----LDNKKQKLEAAKESLQDAAGLGNL 137
Query: 285 FSEIQ--YDAQELANIEERLFALRAMSRKYSVSIDQLPELA--KKMEEDLAD-------- 332
+E++ + +L ++L AL +K + ++L E A +K ED D
Sbjct: 138 LAELEDGFARGDLKGAADKLAAL----QKCLHAQEELAEFAERQKQLEDFEDRLEALAQP 193
Query: 333 -----ISEGNEKVVSLERVLYEARQAYDRVAQDISTKRYQFAKMLEKNVMAEMPALKLEN 387
+EG R ++ + ++ + +F K L ++ + A KL N
Sbjct: 194 RLTDAFAEGKTDQAQDFRQIFIRIGRFKQLELQYRAVQKKFIKQLWEDFDEKQGANKLAN 253
>gnl|CDD|31317 COG1120, FepC, ABC-type cobalamin/Fe3+-siderophores transport
systems, ATPase components [Inorganic ion transport and
metabolism / Coenzyme metabolism].
Length = 258
Score = 28.6 bits (64), Expect = 4.1
Identities = 24/81 (29%), Positives = 40/81 (49%), Gaps = 6/81 (7%)
Query: 429 SGGELSRFLLALKIVLVDQGSIPTLVFDEVDSGIGGAVADAIGYRLKQLSKK--IQLLAV 486
SGGE R L+A + Q + P L+ DE S + A + L+ L+++ + ++ V
Sbjct: 140 SGGERQRVLIARALA---QET-PILLLDEPTSHLDIAHQIEVLELLRDLNREKGLTVVMV 195
Query: 487 THAPQVAARADRHFLVYKTNK 507
H +AAR H ++ K K
Sbjct: 196 LHDLNLAARYADHLILLKDGK 216
>gnl|CDD|35288 KOG0065, KOG0065, KOG0065, Pleiotropic drug resistance proteins
(PDR1-15), ABC superfamily [Secondary metabolites
biosynthesis, transport and catabolism].
Length = 1391
Score = 28.7 bits (64), Expect = 4.5
Identities = 14/32 (43%), Positives = 20/32 (62%), Gaps = 4/32 (12%)
Query: 23 LSILSGDTGSGKSILLDALILVTGGRGDGGLV 54
L+ L G++G+GK+ LLD L GR GG +
Sbjct: 819 LTALMGESGAGKTTLLDVL----AGRKTGGYI 846
>gnl|CDD|145542 pfam02456, Adeno_IVa2, Adenovirus IVa2 protein. IVa2 protein can
interact with the adenoviral packaging signal and that
this interaction involves DNA sequences that have
previously been demonstrated to be required for
packaging. During the course of lytic infection, the
adenovirus major late promoter (MLP) is induced to high
levels after replication of viral DNA has started. IVa2
is a transcriptional activator of the major late
promoter.
Length = 370
Score = 28.5 bits (64), Expect = 4.7
Identities = 11/31 (35%), Positives = 17/31 (54%)
Query: 12 IESLDIDFSAGLSILSGDTGSGKSILLDALI 42
+ SL+ + ++ G TG GKS LL L+
Sbjct: 78 LPSLNYGLQPVIGVVYGPTGCGKSQLLRNLL 108
>gnl|CDD|35737 KOG0517, KOG0517, KOG0517, Beta-spectrin [Cytoskeleton].
Length = 2473
Score = 28.4 bits (63), Expect = 5.0
Identities = 28/130 (21%), Positives = 54/130 (41%), Gaps = 6/130 (4%)
Query: 218 QERIAVELSSIMDDFHKSSSPISVISSMLRRLERKSTEVPDLLQKSISFLNEAQENLSDA 277
+ + E+ + D+F S+ I + S+L R S E+ + L+ E E
Sbjct: 1947 HQGLKAEIEAREDNF---SACIELGKSLLLRKHYASEEIKEKLRALQDRREELYEKWERR 2003
Query: 278 QHEIERSFSEIQYDAQELANIEERLFALRAM--SRKYSVSIDQLPELAKKMEEDLADISE 335
+++ Q+ A++ E L A S + S+D++ +L K+ E +
Sbjct: 2004 WEWLQQILEVHQF-ARDAKVAEAWLIAQEPYLRSSELGSSVDEVEKLIKRHEAFEKSAAA 2062
Query: 336 GNEKVVSLER 345
E+ +LER
Sbjct: 2063 QEERFSALER 2072
>gnl|CDD|31303 COG1106, COG1106, Predicted ATPases [General function prediction
only].
Length = 371
Score = 28.5 bits (63), Expect = 5.2
Identities = 14/45 (31%), Positives = 23/45 (51%)
Query: 2 TRLSIYNIVLIESLDIDFSAGLSILSGDTGSGKSILLDALILVTG 46
I N L+++ ++I+ G G+GKS LL+AL + G
Sbjct: 3 KSFKIKNFKSFRELELEDFGKINIIYGANGAGKSNLLEALYFLKG 47
>gnl|CDD|29991 cd01125, repA, Hexameric Replicative Helicase RepA. RepA is
encoded by a plasmid, which is found in most Gram
negative bacteria. RepA is a 5'-3' DNA helicase which
can utilize ATP, GTP and CTP to a lesser extent..
Length = 239
Score = 28.4 bits (63), Expect = 6.0
Identities = 14/43 (32%), Positives = 22/43 (51%), Gaps = 1/43 (2%)
Query: 23 LSILSGDTGSGKS-ILLDALILVTGGRGDGGLVRRHAEKGQVV 64
+S L G+GKS +LL + + G+ G + E G+VV
Sbjct: 3 VSALVAPGGTGKSSLLLVLALAMALGKNLFGGGLKVTEPGRVV 45
>gnl|CDD|57925 cd01854, YjeQ_engC, YjeQ/EngC. YjeQ (YloQ in Bacillus subtilis)
represents a protein family whose members are broadly
conserved in bacteria and have been shown to be
essential to the growth of E. coli and B. subtilis.
Proteins of the YjeQ family contain all sequence motifs
typical of the vast class of P-loop-containing GTPases,
but show a circular permutation, with a G4-G1-G3 pattern
of motifs as opposed to the regular G1-G3-G4 pattern
seen in most GTPases. All YjeQ family proteins display a
unique domain architecture, which includes an N-terminal
OB-fold RNA-binding domain, the central permuted GTPase
domain, and a zinc knuckle-like C-terminal cysteine
domain. This domain architecture suggests a role for
YjeQ as a regulator of translation..
Length = 287
Score = 28.2 bits (63), Expect = 6.4
Identities = 11/31 (35%), Positives = 18/31 (58%)
Query: 12 IESLDIDFSAGLSILSGDTGSGKSILLDALI 42
++ L S+L G +G GKS L++AL+
Sbjct: 152 LDELREYLKGKTSVLVGQSGVGKSTLINALL 182
>gnl|CDD|143401 cd07082, ALDH_F11_NP-GAPDH, NADP+-dependent non-phosphorylating
glyceraldehyde 3-phosphate dehydrogenase and ALDH family
11. NADP+-dependent non-phosphorylating glyceraldehyde
3-phosphate dehydrogenase (NP-GAPDH, EC=1.2.1.9)
catalyzes the irreversible oxidation of glyceraldehyde
3-phosphate to 3-phosphoglycerate generating NADPH for
biosynthetic reactions. This CD also includes the
Arabidopsis thaliana osmotic-stress-inducible ALDH
family 11, ALDH11A3 and similar sequences. In
autotrophic eukaryotes, NP-GAPDH generates NADPH for
biosynthetic processes from photosynthetic
glyceraldehyde-3-phosphate exported from the chloroplast
and catalyzes one of the classic glycolytic bypass
reactions unique to plants.
Length = 473
Score = 27.9 bits (63), Expect = 6.9
Identities = 15/61 (24%), Positives = 26/61 (42%), Gaps = 6/61 (9%)
Query: 239 ISVISSMLRRLERKSTEVPDLLQKSISFLNEAQENLSDAQHEIERSFSEIQYDAQELANI 298
I + L+ EV +LL E + L DA E++R+ I+ +EL +
Sbjct: 64 IDCLHKFADLLKENKEEVANLLMW------EIGKTLKDALKEVDRTIDYIRDTIEELKRL 117
Query: 299 E 299
+
Sbjct: 118 D 118
>gnl|CDD|36213 KOG0995, KOG0995, KOG0995, Centromere-associated protein HEC1 [Cell
cycle control, cell division, chromosome partitioning].
Length = 581
Score = 28.0 bits (62), Expect = 7.1
Identities = 16/83 (19%), Positives = 35/83 (42%)
Query: 260 LQKSISFLNEAQENLSDAQHEIERSFSEIQYDAQELANIEERLFALRAMSRKYSVSIDQL 319
L+K + + E+L E+E +E + D + ++ E+ L+ K+ + Q+
Sbjct: 226 LEKYFTSIANEIEDLKKTNRELEEMINEREKDPGKEESLREKKARLQDDVNKFQAYVSQM 285
Query: 320 PELAKKMEEDLADISEGNEKVVS 342
+ ME+ L + E+
Sbjct: 286 KSKKQHMEKKLEMLKSEIEEKEE 308
>gnl|CDD|72991 cd03232, ABC_PDR_domain2, The pleiotropic drug resistance-like
(PDR) family of ATP-binding cassette (ABC)
transporters. PDR is a well-described phenomenon
occurring in fungi and shares several similarities with
processes in bacteria and higher eukaryotes. This PDR
subfamily represents domain I of its (ABC-IM)2
organization. ABC transporters are a large family of
proteins involved in the transport of a wide variety of
different compounds including sugars, ions, peptides,
and more complex organic molecules. The nucleotide
binding domain shows the highest similarity between all
members of the family. ABC transporters are a subset
of nucleotide hydrolases that contain a signature
motif, Q-loop, and H-loop/switch region, in addition
to, the Walker A motif/P-loop and Walker B motif
commonly found in a number of ATP- and GTP-binding and
hydrolyzing proteins..
Length = 192
Score = 27.8 bits (62), Expect = 8.3
Identities = 13/33 (39%), Positives = 20/33 (60%), Gaps = 4/33 (12%)
Query: 23 LSILSGDTGSGKSILLDALILVTGGRGDGGLVR 55
L+ L G++G+GK+ LLD L GR G++
Sbjct: 35 LTALMGESGAGKTTLLDVL----AGRKTAGVIT 63
>gnl|CDD|185749 cd09236, V_AnPalA_UmRIM20_like, Protein-interacting V-domains of
Aspergillus nidulans PalA/RIM20, Ustilago maydis RIM20,
and related proteins. This family belongs to the
V_Alix_like superfamily which includes the V-shaped (V)
domains of Bro1 and Rim20 from Saccharomyces cerevisiae,
mammalian Alix (apoptosis-linked gene-2 interacting
protein X), His-Domain type N23 protein tyrosine
phosphatase (HD-PTP, also known as PTPN23), and related
domains. Aspergillus nidulas PalA/RIM20 and Ustilago
maydis RIM20, like Saccharomyces cerevisiae Rim20,
participate in the response to the external pH via the
Pal/Rim101 pathway; however, Saccharomyces cerevisiae
Rim20 does not belong to this family. This pathway is a
signaling cascade resulting in the activation of the
transcription factor PacC/Rim101. The mammalian Alix
V-domain (belonging to a different family) contains a
binding site, partially conserved in the superfamily,
for the retroviral late assembly (L) domain YPXnL motif.
Aspergillus nidulas PalA binds a nonviral YPXnL motif
(tandem YPXL/I motifs within PacC). The Alix V-domain is
also a dimerization domain. In addition to this
V-domain, members of the V_Alix_like superfamily also
have an N-terminal Bro1-like domain, which has been
shown to bind CHMP4/Snf7, a component of the ESCRT-III
complex.
Length = 353
Score = 27.7 bits (62), Expect = 8.3
Identities = 42/158 (26%), Positives = 67/158 (42%), Gaps = 15/158 (9%)
Query: 192 IDELQALAVQPGEENELVVMRSKILKQERIAVELSS---IMDDFHKSSSPISVISSM--- 245
E + Q G +ELV R K+ + E + L+ +++F SS S+ +
Sbjct: 136 AAEYEGYLKQAGASDELV--RRKLDEWEDLIQILTGDERDLENFVPSSRRPSIPPELERH 193
Query: 246 LRRLERKSTEVPDLLQKSISFLNEAQENLS--DAQHEIERSFS--EIQYDAQELANIE-E 300
+R L E+ L + + A+ D + EI R + E +Y A E+A E
Sbjct: 194 VRALRVSLEELDRLESRRRRKVERARTKARADDIRPEILREAARLEREYPATEVAPAHFE 253
Query: 301 RLFALRAMSRKYSVSIDQLPELAKKMEEDLADISEGNE 338
LF R KY +D + E A++ EE L I N+
Sbjct: 254 DLFDKRL--AKYDKDLDAVSEEAQEQEEILQQIEVANK 289
>gnl|CDD|36247 KOG1029, KOG1029, KOG1029, Endocytic adaptor protein intersectin
[Signal transduction mechanisms, Intracellular
trafficking, secretion, and vesicular transport].
Length = 1118
Score = 27.8 bits (61), Expect = 8.5
Identities = 32/179 (17%), Positives = 67/179 (37%), Gaps = 18/179 (10%)
Query: 214 KILKQERIAVELSSIMDDFHKSSSPISVISSMLRRLERKSTEVPDLLQKSISFLNEAQEN 273
K L E + S +S++ IS + + E P L ++F ++ +EN
Sbjct: 269 KTLPPELVPPSFRSS-----RSANSISGLEP--GGVGVVDAEPPKKLPAPVTFEDKRKEN 321
Query: 274 LSDAQHEIERS----FSEIQYDAQELANIEERLFALRAMSRKYSVSIDQLPELAKKMEED 329
Q E+ER + Q + +E+ E + R+ QL EL K++E
Sbjct: 322 YEKGQAELERRRQALEEQQQREREEVEQKEREEEEKKERERQEQERKAQL-ELEKQLERQ 380
Query: 330 LADISEGNEKVVSLERVLYEARQAYDRVAQDISTKRYQFAKMLEKNVMAEMPALKLENV 388
+ E+ + E R+A + ++ ++ + + ++ + + V
Sbjct: 381 REIERQREEE----RKKEIERREAARE--ELEKQRQLEWERARRQEMLNQKNREQEWIV 433
>gnl|CDD|34945 COG5383, COG5383, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 295
Score = 27.7 bits (61), Expect = 8.8
Identities = 29/126 (23%), Positives = 41/126 (32%), Gaps = 7/126 (5%)
Query: 244 SMLRRLERKSTEVP----DLLQKSISFLNEAQENLSDAQHEIERSFSEIQYDAQELANIE 299
SMLRRL P DL + + A E +S A + ER + A+ IE
Sbjct: 76 SMLRRLFAVMGMYPVGYYDLSTAGVPVHSTAFEPVSFADEDGERHPG--VHTARFGE-IE 132
Query: 300 ERLFALRAMSRKYSVSIDQLPELAKKMEEDLADISEGNEKVVSLERVLYEARQAYDRVAQ 359
+R AL R + Q A E E+ + E A R
Sbjct: 133 QRGVALTPKGRVLYDDLLQAASTGFNAMAYSATAREIFEQFPDSMSEMREQGLAQFRYLL 192
Query: 360 DISTKR 365
++
Sbjct: 193 ELVAAA 198
>gnl|CDD|32466 COG2312, COG2312, Erythromycin esterase homolog [General function
prediction only].
Length = 405
Score = 27.6 bits (61), Expect = 9.0
Identities = 35/166 (21%), Positives = 49/166 (29%), Gaps = 25/166 (15%)
Query: 404 DGIDRVEFYVQTNRGENPGPLMKLASGGELSRFLLALKIVLVDQGSIPTLVFDEV--DSG 461
+V FY M+ S L +L + + + + D G
Sbjct: 135 SAGPQVGFY-------GFDAQMENGSAAALRAYLDTVDPRAAARARARPVCAATLGTDPG 187
Query: 462 IGGAVADAIGYRLKQLSKKIQLLAVTHAPQVAARADRHFLV------YKTNKPD------ 509
A A+ KQ S+ I L H + A A + PD
Sbjct: 188 QDDAFAEKAAALDKQASEAINAL-DEHRQERRALAQELARLVEQAERRYREMPDAGDASW 246
Query: 510 ---DTQRIETYVAVLTPQERREEIARMLAGSHITEEARAAAEILLE 552
D ET AVL ++I SHI + AE L E
Sbjct: 247 NLRDAAMAETLEAVLATDYPPDKIIVWAHNSHIRKARHLLAEALRE 292
>gnl|CDD|73184 cd00186, TOP1Ac, DNA Topoisomerase, subtype IA; DNA-binding,
ATP-binding and catalytic domain of bacterial DNA
topoisomerases I and III, and eukaryotic DNA
topoisomerase III and eubacterial and archael reverse
gyrases. Topoisomerases clevage single or double
stranded DNA and then rejoin the broken phosphodiester
backbone. Proposed catalytic mechanism of single
stranded DNA cleavage is by phosphoryl transfer through
a tyrosine nucleophile using acid/base catalysis. Tyr is
activated by a nearby group (not yet identified) acting
as a general base for nucleophilic attack on the 5'
phosphate of the scissile bond. Arg and Lys stabilize
the pentavalent transition state. Glu then acts as a
proton donor for the leaving 3'-oxygen, upon cleavage of
the scissile strand..
Length = 381
Score = 27.5 bits (61), Expect = 10.0
Identities = 12/38 (31%), Positives = 21/38 (55%), Gaps = 3/38 (7%)
Query: 320 PELAKKMEEDLADISEGNEKVVSLERVLYEARQAYDRV 357
PE K+EE L +I+EG + + VL E + + ++
Sbjct: 346 PEFTAKLEEKLDEIAEGKK---DYQEVLEEFYEEFKKI 380
Database: CddA
Posted date: Feb 4, 2011 9:38 PM
Number of letters in database: 6,263,737
Number of sequences in database: 21,609
Lambda K H
0.318 0.134 0.362
Gapped
Lambda K H
0.267 0.0643 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 6,253,670
Number of extensions: 337586
Number of successful extensions: 1442
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1420
Number of HSP's successfully gapped: 197
Length of query: 554
Length of database: 6,263,737
Length adjustment: 99
Effective length of query: 455
Effective length of database: 4,124,446
Effective search space: 1876622930
Effective search space used: 1876622930
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: 41 (21.7 bits)
S2: 60 (27.1 bits)