RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy17062
(520 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 = 149 bits (379), Expect = 1e-40
Identities = 60/221 (27%), Positives = 109/221 (49%), Gaps = 12/221 (5%)
Query: 129 RESLHLSRVPESLPCREAEFQSIHRFLLSKISQSTTGCMYISGVPGTGKTATVHAVMRKL 188
++ L +PE LP RE E + FL + + I G GTGKTATV VM +L
Sbjct: 7 KDVLLEDYIPEELPHREEEINQLASFLAPALRGERPSNIIIYGPTGTGKTATVKFVMEEL 66
Query: 189 KQEIGDKFVYVEMNALSIPEPKRAYSRILELLLNVDAPPEQAKAM-----LERHFTRPHG 243
+ E V +N L + P + S+IL L V P ++ L + ++
Sbjct: 67 E-ESSANVEVVYINCLELRTPYQVLSKILNKLGKV--PLTGDSSLEILKRLYDNLSKKGK 123
Query: 244 PCVLLIDELDYLCNKRQDVIYNILEYLNKPKSRLIILCIANTMDLPERTLKGKVSSRMGL 303
++++DE+D L +K +V+Y++L + K ++ I+ ++N + L +V S +G
Sbjct: 124 TVIVILDEVDALVDKDGEVLYSLLRAPGENKVKVSIIAVSNDDKFLDY-LDPRVKSSLGP 182
Query: 304 TRLMFKPYDHHQLQEIVQNRLK---NNNCFHPDAVQLVARL 341
+ ++F PY +L +I++ R++ + D ++L+A L
Sbjct: 183 SEIVFPPYTAEELYDILRERVEEGFSAGVIDDDVLKLIAAL 223
Score = 58.9 bits (143), Expect = 2e-09
Identities = 23/63 (36%), Positives = 32/63 (50%)
Query: 453 RESLHLSRVPESLPCREAEFQSIHRFLLSKISQSTTGCMYISGVPGTGKTATVHAVMRKL 512
++ L +PE LP RE E + FL + + I G GTGKTATV VM +L
Sbjct: 7 KDVLLEDYIPEELPHREEEINQLASFLAPALRGERPSNIIIYGPTGTGKTATVKFVMEEL 66
Query: 513 KQE 515
++
Sbjct: 67 EES 69
>gnl|CDD|240274 PTZ00112, PTZ00112, origin recognition complex 1 protein;
Provisional.
Length = 1164
Score = 139 bits (351), Expect = 7e-35
Identities = 110/333 (33%), Positives = 171/333 (51%), Gaps = 23/333 (6%)
Query: 21 LIDDQTNTSPDIGPKKKSKSKYWDWVSSSSDEEEKEENHVIGKLDTAPVENLRPRSLKST 80
LI ++ + G KK SK +Y + + + K + H K D + + + ST
Sbjct: 644 LIIEKLKINEQGGQKKNSKKEYMN--PAQTTTSSKAKTHSKTKNDHNKSKTSKNKEPSST 701
Query: 81 KKSQHATPSSHKPNVSTPSSIKK-TVTLTPTLPKRLTAPLTPSTPLQLARESLHLSRVPE 139
Q S NV S IK+ L + +T P A + L VP+
Sbjct: 702 SFLQDVKKKSDPHNVDFKSFIKQDQENYYVNLLRNIT------DPTDKAIRMMQLDVVPK 755
Query: 140 SLPCREAEFQSIHRFLLSKISQS-TTGCMYISGVPGTGKTATVHAVMR----KLKQEIGD 194
LPCRE E + +H FL S I QS + +YISG+PGTGKTATV++V++ K KQ++
Sbjct: 756 YLPCREKEIKEVHGFLESGIKQSGSNQILYISGMPGTGKTATVYSVIQLLQHKTKQKLLP 815
Query: 195 KFVYVEMNALSIPEPKRAYSRILELLLNVDAPPEQAKA--MLERHFTRPHGP----CVLL 248
F E+N +++ P AY + + L N PP + +L+R F + +L+
Sbjct: 816 SFNVFEINGMNVVHPNAAYQVLYKQLFN-KKPPNALNSFKILDRLFNQNKKDNRNVSILI 874
Query: 249 IDELDYLCNKRQDVIYNILEYLNKPKSRLIILCIANTMDLPERTLKGKVSSRMGLTRLMF 308
IDE+DYL K Q V++ + ++ K S+L+++ I+NTMDLPER L + SR+ RL+F
Sbjct: 875 IDEIDYLITKTQKVLFTLFDWPTKINSKLVLIAISNTMDLPER-LIPRCRSRLAFGRLVF 933
Query: 309 KPYDHHQLQEIVQNRLKN-NNCFHPDAVQLVAR 340
PY ++++I++ RL+N A+QL AR
Sbjct: 934 SPYKGDEIEKIIKERLENCKEIIDHTAIQLCAR 966
Score = 63.5 bits (154), Expect = 2e-10
Identities = 45/119 (37%), Positives = 61/119 (51%), Gaps = 8/119 (6%)
Query: 403 STKKSQHATPSSHKPNVSTPSSIKK-TVTLTPTLPKRLTAPLTPSTPLQLARESLHLSRV 461
ST Q S NV S IK+ L + +T P A + L V
Sbjct: 700 STSFLQDVKKKSDPHNVDFKSFIKQDQENYYVNLLRNIT------DPTDKAIRMMQLDVV 753
Query: 462 PESLPCREAEFQSIHRFLLSKISQS-TTGCMYISGVPGTGKTATVHAVMRKLKQEIGDK 519
P+ LPCRE E + +H FL S I QS + +YISG+PGTGKTATV++V++ L+ + K
Sbjct: 754 PKYLPCREKEIKEVHGFLESGIKQSGSNQILYISGMPGTGKTATVYSVIQLLQHKTKQK 812
>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 = 88.8 bits (221), Expect = 4e-19
Identities = 48/220 (21%), Positives = 98/220 (44%), Gaps = 16/220 (7%)
Query: 129 RESLHLSRVPESLPCREAEFQSIHRFLLSKISQSTTGCMYISGVPGTGKTATVHAVMRKL 188
R+ L VP+ + R+ + + + + L + S ++I G GTGKTA VM++L
Sbjct: 5 RDLLEPDYVPDRIVHRDEQIEELAKALRPILRGSRPSNVFIYGKTGTGKTAVTKYVMKEL 64
Query: 189 KQEIGDK---FVYVEMNALSIPEPKRAYSRILELLLNVD-APPEQ---AKAMLERHFTR- 240
++ D+ V V +N + + + L P + R +
Sbjct: 65 EEAAEDRDVRVVTVYVNCQILDTLYQVLVELANQLRGSGEEVPTTGLSTSEVFRRLYKEL 124
Query: 241 -PHGPCVLLI-DELDYLCNKRQDVIYNIL---EYLNKPKSRLIILCIANTMDLPERTLKG 295
G ++++ DE+DYL D++Y + + +++ ++ I+N + E L
Sbjct: 125 NERGDSLIIVLDEIDYLVGDDDDLLYQLSRARSNGDLDNAKVGVIGISNDLKFREN-LDP 183
Query: 296 KVSSRMGLTRLMFKPYDHHQLQEIVQNRLKNNNCFHPDAV 335
+V S + ++F PYD +L++I++NR + F+ +
Sbjct: 184 RVKSSLCEEEIIFPPYDAEELRDILENRAE--KAFYDGVL 221
Score = 46.1 bits (110), Expect = 2e-05
Identities = 19/67 (28%), Positives = 35/67 (52%)
Query: 453 RESLHLSRVPESLPCREAEFQSIHRFLLSKISQSTTGCMYISGVPGTGKTATVHAVMRKL 512
R+ L VP+ + R+ + + + + L + S ++I G GTGKTA VM++L
Sbjct: 5 RDLLEPDYVPDRIVHRDEQIEELAKALRPILRGSRPSNVFIYGKTGTGKTAVTKYVMKEL 64
Query: 513 KQEIGDK 519
++ D+
Sbjct: 65 EEAAEDR 71
>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 = 74.6 bits (184), Expect = 4e-16
Identities = 32/156 (20%), Positives = 59/156 (37%), Gaps = 36/156 (23%)
Query: 167 MYISGVPGTGKTATVHAVMRKLKQEIGDKFVYVEMNALSIPEPKRAYSRILELLLNVDAP 226
+ + G PGTGKT AV ++L ++E++ + K V
Sbjct: 1 LLLYGPPGTGKTTLAKAVAKELGAP------FIEISGSEL-VSKY-----------VGES 42
Query: 227 PEQAKAMLERHFTRPHGPCVLLIDELDYLCNKR-----------QDVIYNILEYLNKPKS 275
++ + + E + PCV+ IDE+D L R + + L+ S
Sbjct: 43 EKRLRELFEA--AKKLAPCVIFIDEIDALAGSRGSGGDSESRRVVNQLLTELDGFTSSLS 100
Query: 276 RLIILCIANTMDLPERTLKGKVSSRMGLTRLMFKPY 311
++I++ N D + L + R R++ P
Sbjct: 101 KVIVIAATNRPDKLDPAL---LRGRFD--RIIEFPL 131
Score = 36.8 bits (86), Expect = 0.006
Identities = 10/23 (43%), Positives = 14/23 (60%)
Query: 491 MYISGVPGTGKTATVHAVMRKLK 513
+ + G PGTGKT AV ++L
Sbjct: 1 LLLYGPPGTGKTTLAKAVAKELG 23
>gnl|CDD|234751 PRK00411, cdc6, cell division control protein 6; Reviewed.
Length = 394
Score = 78.7 bits (195), Expect = 1e-15
Identities = 61/223 (27%), Positives = 100/223 (44%), Gaps = 29/223 (13%)
Query: 129 RESLHLSRVPESLPCREAEFQSIHRFLLSKISQSTTGCMYISGVPGTGKTATVHAVMRKL 188
E L VPE+LP RE + + + L + S + I G PGTGKT TV V +L
Sbjct: 20 EEVLEPDYVPENLPHREEQIEELAFALRPALRGSRPLNVLIYGPPGTGKTTTVKKVFEEL 79
Query: 189 KQEIGDKFVYVEMNALSIPEPKRAYSRILELLLNVDAPP---------EQAKAMLERHFT 239
+ EI K VYV +N +S I L P ++ L+
Sbjct: 80 E-EIAVKVVYVYINCQIDRTRYAIFSEIARQLFGHPPPSSGLSFDELFDKIAEYLDER-- 136
Query: 240 RPHGPCVLLI--DELDYLCNKR-QDVIYNIL----EYLNKPKSRLIILCIANTMDLPERT 292
VL++ D+++YL K DV+Y++L EY P +R+ ++ I++ +
Sbjct: 137 ----DRVLIVALDDINYLFEKEGNDVLYSLLRAHEEY---PGARIGVIGISSDLTFLYI- 188
Query: 293 LKGKVSSRMGLTRLMFKPYDHHQLQEIVQNRLKNNNCFHPDAV 335
L +V S + F PY ++ +I+++R++ F+P V
Sbjct: 189 LDPRVKSVFRPEEIYFPPYTADEIFDILKDRVEEG--FYPGVV 229
Score = 42.9 bits (102), Expect = 3e-04
Identities = 23/67 (34%), Positives = 34/67 (50%), Gaps = 4/67 (5%)
Query: 453 RESLHLSRVPESLPCREAEFQSIHRFLLSKISQSTTGCMYISGVPGTGKTATVHAVMRKL 512
E L VPE+LP RE + + + L + S + I G PGTGKT TV +K+
Sbjct: 20 EEVLEPDYVPENLPHREEQIEELAFALRPALRGSRPLNVLIYGPPGTGKTTTV----KKV 75
Query: 513 KQEIGDK 519
+E+ +
Sbjct: 76 FEELEEI 82
>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 = 67.6 bits (165), Expect = 2e-13
Identities = 31/146 (21%), Positives = 52/146 (35%), Gaps = 17/146 (11%)
Query: 146 AEFQSIHRFLLSKISQSTTGCMYISGVPGTGKTATVHAVMRKLKQEIGDKFVYVEMNALS 205
+ L + + + G PGTGKT A+ +L G F+Y+ + L
Sbjct: 1 VGQEEAIEALREALELPPPKNLLLYGPPGTGKTTLARAIANELF-RPGAPFLYLNASDL- 58
Query: 206 IPEPKRAYSRILELLLNVDAPPEQAKAMLERHFTRPHGPCVLLIDELDYLCNKRQDVIYN 265
++ L + E+ P VL IDE+D L Q+ +
Sbjct: 59 -------LEGLVVAELFGHFLVRLLFELAEK-----AKPGVLFIDEIDSLSRGAQNALLR 106
Query: 266 ILEYLN---KPKSRLIILCIANTMDL 288
+LE LN + + ++ N L
Sbjct: 107 VLETLNDLRIDRENVRVIGATNRPLL 132
Score = 38.7 bits (90), Expect = 0.002
Identities = 10/44 (22%), Positives = 16/44 (36%)
Query: 470 AEFQSIHRFLLSKISQSTTGCMYISGVPGTGKTATVHAVMRKLK 513
+ L + + + G PGTGKT A+ +L
Sbjct: 1 VGQEEAIEALREALELPPPKNLLLYGPPGTGKTTLARAIANELF 44
>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 = 65.7 bits (160), Expect = 1e-12
Identities = 29/157 (18%), Positives = 52/157 (33%), Gaps = 21/157 (13%)
Query: 141 LPCREAEFQSIHRFLLSKISQSTTGCMYISGVPGTGKTATVHAVMRKLKQEIGDKFVYVE 200
L RE E + + L + + ++G GTGKT+ + ++ L K E
Sbjct: 2 LVGREEELERLLD-ALRRARSGGPPSVLLTGPSGTGKTSLLRELLEGL-LVAAGKCDQAE 59
Query: 201 MN-----------------ALSIPEPKRAYSRILELLLNVDAPPEQAKAMLERHFTRPHG 243
N E +L L Q L
Sbjct: 60 RNPPYAFSQALRELLRQLLRELAAELLLLREALLAALGAELIEGLQDLVELLERLLARAR 119
Query: 244 PCVLLIDELDYLCNKRQDVIYNILEYLNKPKSRLIIL 280
P VL++D+L + + D++ +L L + L+++
Sbjct: 120 PLVLVLDDLQWADEESLDLLAALLRRL--ERLPLLVV 154
Score = 53.4 bits (128), Expect = 1e-08
Identities = 13/53 (24%), Positives = 23/53 (43%), Gaps = 1/53 (1%)
Query: 465 LPCREAEFQSIHRFLLSKISQSTTGCMYISGVPGTGKTATVHAVMRKLKQEIG 517
L RE E + + L + + ++G GTGKT+ + ++ L G
Sbjct: 2 LVGREEELERLLD-ALRRARSGGPPSVLLTGPSGTGKTSLLRELLEGLLVAAG 53
>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 = 58.9 bits (142), Expect = 2e-10
Identities = 33/148 (22%), Positives = 60/148 (40%), Gaps = 9/148 (6%)
Query: 165 GCMYISGVPGTGKTATVHAVMRKLKQEIGDKFVYVEMNALSIPEPKRAYSRILELLLNVD 224
+ I G PG+GKT A+ R+L G +Y++ + + I+
Sbjct: 3 EVILIVGPPGSGKTTLARALARELGPP-GGGVIYIDGEDILEEVLDQLLLIIVGGKKASG 61
Query: 225 APPEQAKAMLERHFTRPHGPCVLLIDELDYLCNKRQDVIYNILEYL-----NKPKSRLII 279
+ + + L R P VL++DE+ L + Q+ + +LE L K + L +
Sbjct: 62 SGELRLRLALALA--RKLKPDVLILDEITSLLDAEQEALLLLLEELRLLLLLKSEKNLTV 119
Query: 280 LCIAN-TMDLPERTLKGKVSSRMGLTRL 306
+ N DL L+ + R+ L +
Sbjct: 120 ILTTNDEKDLGPALLRRRFDRRIVLLLI 147
Score = 34.3 bits (78), Expect = 0.059
Identities = 11/30 (36%), Positives = 15/30 (50%)
Query: 489 GCMYISGVPGTGKTATVHAVMRKLKQEIGD 518
+ I G PG+GKT A+ R+L G
Sbjct: 3 EVILIVGPPGSGKTTLARALARELGPPGGG 32
>gnl|CDD|222104 pfam13401, AAA_22, AAA domain.
Length = 124
Score = 53.8 bits (130), Expect = 6e-09
Identities = 26/97 (26%), Positives = 42/97 (43%), Gaps = 8/97 (8%)
Query: 161 QSTTGCMYISGVPGTGKTATVHAVMRKLKQEIGDKFVYVEMNALSIPEPKRAYSRILELL 220
+ G ++G G+GKT + + R+L + VYVE +L PK +IL
Sbjct: 1 RRGAGIGVLTGESGSGKTTLLRRLARQLPN---RRVVYVEAPSLG--TPKDLLRKILR-A 54
Query: 221 LNVDAPPEQAKAMLER--HFTRPHGPCVLLIDELDYL 255
L + +LE + G +L+IDE +L
Sbjct: 55 LGLPLSGGTTAELLEAILDALKRRGRPLLIIDEAQHL 91
Score = 33.0 bits (76), Expect = 0.11
Identities = 8/30 (26%), Positives = 15/30 (50%)
Query: 485 QSTTGCMYISGVPGTGKTATVHAVMRKLKQ 514
+ G ++G G+GKT + + R+L
Sbjct: 1 RRGAGIGVLTGESGSGKTTLLRRLARQLPN 30
>gnl|CDD|223540 COG0464, SpoVK, ATPases of the AAA+ class [Posttranslational
modification, protein turnover, chaperones].
Length = 494
Score = 39.4 bits (92), Expect = 0.004
Identities = 36/210 (17%), Positives = 68/210 (32%), Gaps = 39/210 (18%)
Query: 155 LLSKISQSTTGCMYISGVPGTGKTATVHAVMRKLKQEIGDKFVYVEMNALSIPEPKRAYS 214
L K+ + + G PGTGKT AV E +F+ V+ +
Sbjct: 267 LFRKLGLRPPKGVLLYGPPGTGKTLLAKAV----ALESRSRFISVKG-------SELLSK 315
Query: 215 RILELLLNVDAPPEQAKAMLERHFTRPHGPCVLLIDELDYLCNKRQDVIYNILEYLN--- 271
+ E N+ + + E+ P ++ IDE+D L + R +
Sbjct: 316 WVGESEKNI-------RELFEKARK--LAPSIIFIDEIDSLASGRGPSEDGSGRRVVGQL 366
Query: 272 -------KPKSRLIILCIANTMDL--PERTLKGKVSSRMGLTRLMFKPYDHHQLQEIVQN 322
+ ++++ N D P G+ + D + EI +
Sbjct: 367 LTELDGIEKAEGVLVIAATNRPDDLDPALLRPGRFDRLIY-----VPLPDLEERLEIFKI 421
Query: 323 RLK-NNNCFHPDAV-QLVARLEPPTSRSEI 350
L+ D + +A + S ++I
Sbjct: 422 HLRDKKPPLAEDVDLEELAEITEGYSGADI 451
Score = 31.3 bits (71), Expect = 1.3
Identities = 22/95 (23%), Positives = 35/95 (36%), Gaps = 21/95 (22%)
Query: 166 CMYISGVPGTGKTATVHAVMRKLKQEIGDKFVYVEMNALSIPEPKRAYSRILELLLNVDA 225
+ + G PGTGKT A+ + E +++ PE Y V
Sbjct: 20 GVLLHGPPGTGKTLLARALANE----------GAEFLSINGPEILSKY---------VGE 60
Query: 226 PPEQAKAMLERHFTRPHGPCVLLIDELDYLCNKRQ 260
+ + + E P ++ IDE+D L KR
Sbjct: 61 SELRLRELFE--EAEKLAPSIIFIDEIDALAPKRS 93
>gnl|CDD|235250 PRK04195, PRK04195, replication factor C large subunit;
Provisional.
Length = 482
Score = 35.7 bits (83), Expect = 0.062
Identities = 12/33 (36%), Positives = 16/33 (48%), Gaps = 6/33 (18%)
Query: 171 GVPGTGKTATVHAVMRKLKQEIGDKFVYVEMNA 203
G PG GKT+ HA+ E +E+NA
Sbjct: 46 GPPGVGKTSLAHALANDYGWE------VIELNA 72
Score = 29.1 bits (66), Expect = 6.4
Identities = 9/22 (40%), Positives = 12/22 (54%)
Query: 495 GVPGTGKTATVHAVMRKLKQEI 516
G PG GKT+ HA+ E+
Sbjct: 46 GPPGVGKTSLAHALANDYGWEV 67
>gnl|CDD|214692 smart00487, DEXDc, DEAD-like helicases superfamily.
Length = 201
Score = 34.0 bits (78), Expect = 0.12
Identities = 22/139 (15%), Positives = 46/139 (33%), Gaps = 27/139 (19%)
Query: 167 MYISGVPGTGKTAT-VHAVMRKLKQEIGDKFVYV------------EMNALSIPEPKRA- 212
+ ++ G+GKT + + LK+ G + + + E+ L +
Sbjct: 27 VILAAPTGSGKTLAALLPALEALKRGKGGRVLVLVPTRELAEQWAEELKKLGPSLGLKVV 86
Query: 213 -------YSRILELLLNVDAP-----PEQAKAMLERHFTRPHGPCVLLIDELDYLCNK-R 259
L L + P + +LE ++++DE L +
Sbjct: 87 GLYGGDSKREQLRKLESGKTDILVTTPGRLLDLLENDKLSLSNVDLVILDEAHRLLDGGF 146
Query: 260 QDVIYNILEYLNKPKSRLI 278
D + +L+ L K L+
Sbjct: 147 GDQLEKLLKLLPKNVQLLL 165
>gnl|CDD|221983 pfam13207, AAA_17, AAA domain.
Length = 114
Score = 32.3 bits (73), Expect = 0.17
Identities = 16/69 (23%), Positives = 32/69 (46%), Gaps = 8/69 (11%)
Query: 169 ISGVPGTGKTATVHAVMRKLKQEIGDKFVYVEMNALSIPEPKRAYSRILELLLNVDAPPE 228
I+G PG+GK+ T + +KL +++G + ++ L E L ++D E
Sbjct: 4 ITGPPGSGKS-T---LAKKLAEKLG--IPVISLDDLLREEGLAELDD--GELDDIDIDLE 55
Query: 229 QAKAMLERH 237
+ +L+
Sbjct: 56 LLEEILDEL 64
>gnl|CDD|218719 pfam05729, NACHT, NACHT domain. This NTPase domain is found in
apoptosis proteins as well as those involved in MHC
transcription activation. This family is closely related
to pfam00931.
Length = 165
Score = 33.1 bits (76), Expect = 0.19
Identities = 23/124 (18%), Positives = 42/124 (33%), Gaps = 17/124 (13%)
Query: 169 ISGVPGTGKTATVHAVMRKL---KQEIGDKFV-YVEMNALSIPEPKRAYSRILELLLNVD 224
+ G G+GKT + + K FV ++ LS +
Sbjct: 5 LQGEAGSGKTTLLQKIALLWAQGKLPQDFDFVFFLPCRELSRSGEASLADLLFSQWPEPA 64
Query: 225 APPEQAKAMLERHFTRPHGPCVLLIDELDYLCNKRQDVIYN------ILEYLNK---PKS 275
AP + A++ R +L++D LD L + + + L K P +
Sbjct: 65 APVSEVWAVILELPER----LLLILDGLDELASDLGQLDGPCPVLTLLSSLLRKKLLPGA 120
Query: 276 RLII 279
L++
Sbjct: 121 SLLL 124
>gnl|CDD|214386 CHL00176, ftsH, cell division protein; Validated.
Length = 638
Score = 33.9 bits (78), Expect = 0.20
Identities = 27/119 (22%), Positives = 44/119 (36%), Gaps = 25/119 (21%)
Query: 146 AEFQSIHRFLLSKISQSTTGCMYISGV-----PGTGKTATVHAVMRKLKQEIGDKFVYVE 200
EF+ + FL + G GV PGTGKT A+ E F +
Sbjct: 193 EEFEEVVSFLKKPERFTAVGAKIPKGVLLVGPPGTGKTLLAKAI----AGEAEVPFFSIS 248
Query: 201 MNALSIPEPKRAYSRILELLLNVDAPPEQAKAMLERHFTRPHGPCVLLIDELDYLCNKR 259
+ +R+ +L ++AK + PC++ IDE+D + +R
Sbjct: 249 GSEFVEMFVGVGAARVRDLF-------KKAKE---------NSPCIVFIDEIDAVGRQR 291
>gnl|CDD|238540 cd01120, RecA-like_NTPases, RecA-like NTPases. This family includes
the NTP binding domain of F1 and V1 H+ATPases, DnaB and
related helicases as well as bacterial RecA and related
eukaryotic and archaeal recombinases. This group also
includes bacterial conjugation proteins and related DNA
transfer proteins involved in type II and type IV
secretion.
Length = 165
Score = 32.1 bits (73), Expect = 0.37
Identities = 18/96 (18%), Positives = 33/96 (34%), Gaps = 9/96 (9%)
Query: 169 ISGVPGTGKTATVHAVMRKLKQEIGDKFVYVEMNALSIPEPKRAY--------SRILELL 220
+ G G+GKT + + + G K VYV++ +R ++ +
Sbjct: 4 VFGPTGSGKTTLALQLALNIATK-GGKVVYVDIEEEIEELTERLIGESLKGALDNLIIVF 62
Query: 221 LNVDAPPEQAKAMLERHFTRPHGPCVLLIDELDYLC 256
D P G ++++DEL L
Sbjct: 63 ATADDPAAARLLSKAERLRERGGDDLIILDELTRLV 98
>gnl|CDD|235210 PRK04040, PRK04040, adenylate kinase; Provisional.
Length = 188
Score = 31.8 bits (73), Expect = 0.47
Identities = 10/31 (32%), Positives = 18/31 (58%), Gaps = 4/31 (12%)
Query: 169 ISGVPGTGKTATVHAVMRKLKQEIGDKFVYV 199
++GVPG GKT V+ K +++ + + V
Sbjct: 7 VTGVPGVGKT----TVLNKALEKLKEDYKIV 33
Score = 29.9 bits (68), Expect = 2.2
Identities = 9/28 (32%), Positives = 17/28 (60%), Gaps = 4/28 (14%)
Query: 493 ISGVPGTGKTATVHAVMRKLKQEIGDKF 520
++GVPG GKT V+ K +++ + +
Sbjct: 7 VTGVPGVGKT----TVLNKALEKLKEDY 30
>gnl|CDD|217465 pfam03266, NTPase_1, NTPase. This domain is found across all
species from bacteria to human, and the function was
determined first in a hyperthermophilic bacterium to be
an NTPase. The structure of one member-sequence
represents a variation of the RecA fold, and implies
that the function might be that of a DNA/RNA modifying
enzyme. The sequence carries both a Walker A and Walker
B motif which together are characteristic of ATPases or
GTPases. The protein exhibits an increased expression
profile in human liver cholangiocarcinoma when compared
to normal tissue.
Length = 168
Score = 31.4 bits (72), Expect = 0.55
Identities = 12/24 (50%), Positives = 15/24 (62%)
Query: 168 YISGVPGTGKTATVHAVMRKLKQE 191
+I+G PG GKT V V+ LK E
Sbjct: 3 FITGPPGVGKTTLVKKVIELLKSE 26
Score = 31.4 bits (72), Expect = 0.55
Identities = 12/24 (50%), Positives = 15/24 (62%)
Query: 492 YISGVPGTGKTATVHAVMRKLKQE 515
+I+G PG GKT V V+ LK E
Sbjct: 3 FITGPPGVGKTTLVKKVIELLKSE 26
>gnl|CDD|224025 COG1100, COG1100, GTPase SAR1 and related small G proteins [General
function prediction only].
Length = 219
Score = 31.9 bits (72), Expect = 0.55
Identities = 26/161 (16%), Positives = 52/161 (32%), Gaps = 11/161 (6%)
Query: 171 GVPGTGKTATVHAVMRKLKQEIGDKFVYVEMNALSIPEPKRAYSRILELLLNVDAPPEQA 230
G G GKT ++ ++ E + A +I +R I L + A E+
Sbjct: 12 GDGGVGKTTLLNRLVGDEFPEGYPPTIGNLDPAKTIEPYRR---NIKLQLWDT-AGQEEY 67
Query: 231 KAMLERHFTRPHGPCVLLIDELDYLCNKRQDVIYNILEYLN--KPKSRLIILCIANTMDL 288
+++ ++ +G +++ D ++ LE L P I+L N +DL
Sbjct: 68 RSLRPEYYRGANG-ILIVYDSTLR--ESSDELTEEWLEELRELAPDDVPILLV-GNKIDL 123
Query: 289 PERTLKGKVSSRMGLTRLMFKPYDHHQLQEIVQNRLKNNNC 329
+ + L R + +
Sbjct: 124 FDEQSSSEEILNQ-LNREVVLLVLAPKAVLPEVANPALLET 163
>gnl|CDD|178596 PLN03025, PLN03025, replication factor C subunit; Provisional.
Length = 319
Score = 32.0 bits (73), Expect = 0.75
Identities = 14/37 (37%), Positives = 23/37 (62%), Gaps = 5/37 (13%)
Query: 169 ISGVPGTGKTATVHAVMRKLKQEIGDKF--VYVEMNA 203
+SG PGTGKT ++ A+ +L +G + +E+NA
Sbjct: 39 LSGPPGTGKTTSILALAHEL---LGPNYKEAVLELNA 72
Score = 29.7 bits (67), Expect = 3.4
Identities = 10/20 (50%), Positives = 15/20 (75%)
Query: 493 ISGVPGTGKTATVHAVMRKL 512
+SG PGTGKT ++ A+ +L
Sbjct: 39 LSGPPGTGKTTSILALAHEL 58
>gnl|CDD|234389 TIGR03903, TOMM_kin_cyc, TOMM system kinase/cyclase fusion protein.
This model represents proteins of 1350 in length, in
multiple species of Burkholderia, in Acidovorax avenae
subsp. citrulli AAC00-1 and Delftia acidovorans SPH-1,
and in multiple copies in Sorangium cellulosum, in
genomic neighborhoods that include a
cyclodehydratase/docking scaffold fusion protein
(TIGR03882) and a member of the thiazole/oxazole
modified metabolite (TOMM) precursor family TIGR03795.
It has a kinase domain in the N-terminal 300 amino
acids, followed by a cyclase homology domain, followed
by regions without named domain definitions. It is a
probable bacteriocin-like metabolite biosynthesis
protein [Cellular processes, Toxin production and
resistance].
Length = 1266
Score = 32.1 bits (73), Expect = 0.78
Identities = 23/74 (31%), Positives = 38/74 (51%), Gaps = 11/74 (14%)
Query: 169 ISGVPGTGKTATVHAVMRKLKQEIGDKFVYVEMNALSIPEPK-RAYSRILELL-----LN 222
+ G G GK+ VH ++ K++ G ++E L PE + A +L L+ L+
Sbjct: 509 VVGEAGIGKSRLVHELVEKVR---GRPHAFLECRCL--PEQENHALFPVLRLVRAHWGLD 563
Query: 223 VDAPPEQAKAMLER 236
+APPEQA A ++
Sbjct: 564 RNAPPEQALAAIDA 577
>gnl|CDD|236783 PRK10875, recD, exonuclease V subunit alpha; Provisional.
Length = 615
Score = 31.8 bits (73), Expect = 0.89
Identities = 11/13 (84%), Positives = 11/13 (84%)
Query: 169 ISGVPGTGKTATV 181
ISG PGTGKT TV
Sbjct: 172 ISGGPGTGKTTTV 184
Score = 31.8 bits (73), Expect = 0.89
Identities = 11/13 (84%), Positives = 11/13 (84%)
Query: 493 ISGVPGTGKTATV 505
ISG PGTGKT TV
Sbjct: 172 ISGGPGTGKTTTV 184
>gnl|CDD|128474 smart00177, ARF, ARF-like small GTPases; ARF, ADP-ribosylation
factor. Ras homologues involved in vesicular transport.
Activator of phospholipase D isoforms. Unlike Ras
proteins they lack cysteine residues at their C-termini
and therefore are unlikely to be prenylated. ARFs are
N-terminally myristoylated. Contains ATP/GTP-binding
motif (P-loop).
Length = 175
Score = 30.7 bits (69), Expect = 1.1
Identities = 18/82 (21%), Positives = 36/82 (43%), Gaps = 9/82 (10%)
Query: 234 LERHFTRPHGPCVLLIDELDYLCNKRQDV---IYNILEYLNKPKSR-LIILCIANTMDLP 289
L RH+ + ++D N R + + LN+ + R +IL AN DLP
Sbjct: 73 LWRHYYTNTQGLIFVVD-----SNDRDRIDEAREELHRMLNEDELRDAVILVFANKQDLP 127
Query: 290 ERTLKGKVSSRMGLTRLMFKPY 311
+ +++ ++GL + + +
Sbjct: 128 DAMKAAEITEKLGLHSIRDRNW 149
>gnl|CDD|222000 pfam13238, AAA_18, AAA domain.
Length = 128
Score = 29.7 bits (67), Expect = 1.4
Identities = 10/32 (31%), Positives = 18/32 (56%), Gaps = 4/32 (12%)
Query: 168 YISGVPGTGKTATVHAVMRKLKQEIGDKFVYV 199
I+G PG+GKT + ++L + +GD +
Sbjct: 2 LITGTPGSGKT----TLAKELAERLGDVLRDL 29
Score = 29.3 bits (66), Expect = 2.2
Identities = 9/27 (33%), Positives = 14/27 (51%)
Query: 492 YISGVPGTGKTATVHAVMRKLKQEIGD 518
I+G PG+GKT + +L + D
Sbjct: 2 LITGTPGSGKTTLAKELAERLGDVLRD 28
>gnl|CDD|218421 pfam05086, Dicty_REP, Dictyostelium (Slime Mold) REP protein. This
family consists of REP proteins from Dictyostelium
(Slime molds). REP protein is likely involved in
transcription regulation and control of DNA replication,
specifically amplification of plasmid at low copy
numbers. The formation of homomultimers may be required
for their regulatory activity.
Length = 910
Score = 31.3 bits (71), Expect = 1.4
Identities = 24/129 (18%), Positives = 41/129 (31%), Gaps = 14/129 (10%)
Query: 352 CANHYTNEKKSKSKYWDWVSSSS-------DEEEKEENHVIGKLDTAPVENLRPRSL--- 401
CA+H + K D++S S D + ++E + P NL
Sbjct: 173 CADHKGFVAEGFYKNVDFISMLSLFHPIKVDSQNRDEEILSEIYSLYPFVNLEVNESDIE 232
Query: 402 ---KSTKKSQHATPSSHKPNVSTPSSIKKTVTLTPTLPKRLTAPLTPSTP-LQLARESLH 457
+++ Q K +T ++ T T T R + L A E
Sbjct: 233 QISINSENIQRINSQPSKRPNNTTTTTTTTTTTTFQPRTRKRKSIDDHKLSLNQAPEKFK 292
Query: 458 LSRVPESLP 466
+ P+ P
Sbjct: 293 NNTKPDDDP 301
>gnl|CDD|224847 COG1936, COG1936, Predicted nucleotide kinase (related to CMP and
AMP kinases) [Nucleotide transport and metabolism].
Length = 180
Score = 30.4 bits (69), Expect = 1.5
Identities = 21/75 (28%), Positives = 34/75 (45%), Gaps = 9/75 (12%)
Query: 169 ISGVPGTGKTATVHAVMRKLKQEIGDKFVYVEMNALSIPEPKRAYSRILELLLNVDAPPE 228
I+G PG GKT TV ++R+L + +E+N L+ Y+ EL +V +
Sbjct: 5 ITGTPGVGKT-TVCKLLRELGYK------VIELNELAKENG--LYTEYDELRKSVIVDVD 55
Query: 229 QAKAMLERHFTRPHG 243
+ + LE G
Sbjct: 56 KLRKRLEELLREGSG 70
>gnl|CDD|222005 pfam13245, AAA_19, Part of AAA domain.
Length = 73
Score = 28.5 bits (64), Expect = 1.5
Identities = 9/13 (69%), Positives = 10/13 (76%)
Query: 169 ISGVPGTGKTATV 181
+ G PGTGKTAT
Sbjct: 15 VDGGPGTGKTATA 27
Score = 28.5 bits (64), Expect = 1.5
Identities = 9/13 (69%), Positives = 10/13 (76%)
Query: 493 ISGVPGTGKTATV 505
+ G PGTGKTAT
Sbjct: 15 VDGGPGTGKTATA 27
>gnl|CDD|223786 COG0714, COG0714, MoxR-like ATPases [General function prediction
only].
Length = 329
Score = 30.9 bits (70), Expect = 1.5
Identities = 32/192 (16%), Positives = 55/192 (28%), Gaps = 41/192 (21%)
Query: 169 ISGVPGTGKTATVHAVMRKLKQEIGDKFVYV----EMNALSIPEPKRAYSRILELLLNVD 224
+ G PG GKT R L + +G FV + ++ + +
Sbjct: 48 LEGPPGVGKTLLA----RALARALGLPFVRIQCTPDLLPSDL---------LGTYAYAAL 94
Query: 225 APPEQAKAMLERHFTRPHGPCVLLIDELD-----------YLCNKRQDVIYNILEYLNKP 273
+ +LL+DE++ +RQ + + P
Sbjct: 95 LLEPGEFRFVPGPLFAAVRV-ILLLDEINRAPPEVQNALLEALEERQVTVPGLTTIRLPP 153
Query: 274 KSRLII----LCIANTMDLPERTLKGKVSSRMGLTRLMFKPYDHHQLQEIVQNRLKNNNC 329
+I T LPE L R L R+ D + + I+ +
Sbjct: 154 PFIVIATQNPGEYEGTYPLPEALL-----DRFLL-RIYVDYPDSEEEERII--LARVGGV 205
Query: 330 FHPDAVQLVARL 341
D LV +
Sbjct: 206 DELDLESLVKPV 217
>gnl|CDD|223666 COG0593, DnaA, ATPase involved in DNA replication initiation [DNA
replication, recombination, and repair].
Length = 408
Score = 31.1 bits (71), Expect = 1.6
Identities = 33/173 (19%), Positives = 69/173 (39%), Gaps = 26/173 (15%)
Query: 168 YISGVPGTGKTATVHAV-MRKLKQEIGDKFVYVEMNALSIPEPKRAYSRILELLLNVDAP 226
+I G G GKT + A+ L + VY+ + + ++ L + +
Sbjct: 117 FIYGGVGLGKTHLLQAIGNEALANGPNARVVYL--------TSEDFTNDFVKALRDNEM- 167
Query: 227 PEQAKAMLERHFTRPHGPCVLLIDELDYLCNK--RQDVIYNILEYLNKPKSRLIILCIAN 284
E+ K +LLID++ +L K Q+ ++ L + ++++
Sbjct: 168 -EKFKEKYSLD--------LLLIDDIQFLAGKERTQEEFFHTFNALLENGKQIVLTSDRP 218
Query: 285 TMDLPERTLKGKVSSRM--GLTRLMFKPYDHHQLQEIVQNRLKNNNCFHPDAV 335
+L L+ ++ SR+ GL + +P D I++ + ++ PD V
Sbjct: 219 PKELNG--LEDRLRSRLEWGLVVEI-EPPDDETRLAILRKKAEDRGIEIPDEV 268
>gnl|CDD|219536 pfam07724, AAA_2, AAA domain (Cdc48 subfamily). This Pfam entry
includes some of the AAA proteins not detected by the
pfam00004 model.
Length = 168
Score = 29.9 bits (68), Expect = 2.3
Identities = 23/105 (21%), Positives = 41/105 (39%), Gaps = 17/105 (16%)
Query: 169 ISGVPGTGKTATVHAVMRKLKQEIGDKFVYVEMNALSIPEPKRAYSRILELLLNVDAPP- 227
G G GKT A+ L + + ++M+ + L+ APP
Sbjct: 8 FLGPTGVGKTELAKALAELLFGDE-RALIRIDMSEYMEE------HSVSRLIG---APPG 57
Query: 228 ----EQAKAMLERHFTRPHGPCVLLIDELDYLCNKRQDVIYNILE 268
E+ + E +P+ ++LIDE++ Q+ + ILE
Sbjct: 58 YVGYEEGGQLTEAVRRKPY--SIVLIDEIEKAHPGVQNDLLQILE 100
>gnl|CDD|218709 pfam05707, Zot, Zonular occludens toxin (Zot). This family
consists of bacterial and viral proteins which are very
similar to the Zonular occludens toxin (Zot). Zot is
elaborated by bacteriophages present in toxigenic
strains of Vibrio cholerae. Zot is a single polypeptide
chain of 44.8 kDa, with the ability to reversibly alter
intestinal epithelial tight junctions, allowing the
passage of macromolecules through mucosal barriers.
Length = 183
Score = 29.6 bits (67), Expect = 2.3
Identities = 24/93 (25%), Positives = 36/93 (38%), Gaps = 13/93 (13%)
Query: 169 ISGVPGTGKTATVHAVMRKLKQEI-GDKFVYVEMNALSIPE-PKRAYSRILELLLNVDAP 226
I+G PG+GKT AV + + + V ++ L++ PK +V
Sbjct: 5 ITGKPGSGKTLE--AVSYHILPALKKGRKVITNIDGLNLERFPKV-------FGEDVRER 55
Query: 227 PEQAKAMLERHFTRPHGPCVLLIDELDYLCNKR 259
E M T P G +L+IDE R
Sbjct: 56 LEDIGYMDPW-RTYPKGA-LLVIDEAQTWFPSR 86
>gnl|CDD|188628 cd09908, H3TH_EXO1, H3TH domain of Exonuclease-1, a
structure-specific, divalent-metal-ion dependent, 5'
nuclease. Exonuclease-1 (EXO1) is involved in multiple,
eukaryotic DNA metabolic pathways, including DNA
replication processes (5' flap DNA endonuclease activity
and double stranded DNA 5'-exonuclease activity), DNA
repair processes (DNA mismatch repair (MMR) and
post-replication repair (PRR), recombination, and
telomere integrity. EXO1 functions in the MMS2
error-free branch of the PRR pathway in the maintenance
and repair of stalled replication forks. Studies also
suggest that EXO1 plays both structural and catalytic
roles during MMR-mediated mutation avoidance. Members of
this subgroup include the H3TH (helix-3-turn-helix)
domains of EXO1 and other similar eukaryotic 5'
nucleases. These nucleases contain a PIN (PilT N
terminus) domain with a helical arch/clamp region/I
domain (not included here) and inserted within the PIN
domain is an atypical helix-hairpin-helix-2 (HhH2)-like
region. This atypical HhH2 region, the H3TH domain, has
an extended loop with at least three turns between the
first two helices, and only three of the four helices
appear to be conserved. Both the H3TH domain and the
helical arch/clamp region are involved in DNA binding.
Studies suggest that a glycine-rich loop in the H3TH
domain contacts the phosphate backbone of the template
strand in the downstream DNA duplex. These nucleases
have a carboxylate rich active site that is involved in
binding essential divalent metal ion cofactors (Mg2+ or
Mn2+) required for nuclease activity. The first metal
binding site is composed entirely of Asp/Glu residues
from the PIN domain, whereas, the second metal binding
site is composed generally of two Asp residues from the
PIN domain and one Asp residue from the H3TH domain.
Together with the helical arch and network of amino
acids interacting with metal binding ions, the H3TH
region defines a positively charged active-site
DNA-binding groove in structure-specific 5' nucleases.
EXO1 nucleases also have C-terminal Mlh1- and
Msh2-binding domains which allow interaction with MMR
and PRR proteins, respectively.
Length = 73
Score = 27.9 bits (63), Expect = 2.5
Identities = 11/37 (29%), Positives = 19/37 (51%), Gaps = 9/37 (24%)
Query: 164 TGCMYISGVPGTG-KTA--------TVHAVMRKLKQE 191
+GC Y+ +PG G K A T+ V++ L+ +
Sbjct: 10 SGCDYLPSLPGIGLKKAYKLVRRHRTIEKVIKALRFD 46
Score = 27.9 bits (63), Expect = 2.5
Identities = 11/37 (29%), Positives = 19/37 (51%), Gaps = 9/37 (24%)
Query: 488 TGCMYISGVPGTG-KTA--------TVHAVMRKLKQE 515
+GC Y+ +PG G K A T+ V++ L+ +
Sbjct: 10 SGCDYLPSLPGIGLKKAYKLVRRHRTIEKVIKALRFD 46
>gnl|CDD|234763 PRK00440, rfc, replication factor C small subunit; Reviewed.
Length = 319
Score = 30.2 bits (69), Expect = 2.8
Identities = 14/36 (38%), Positives = 22/36 (61%), Gaps = 5/36 (13%)
Query: 170 SGVPGTGKTATVHAVMRKLKQEIGDKFV--YVEMNA 203
+G PGTGKT A+ R+L G+ + ++E+NA
Sbjct: 44 AGPPGTGKTTAALALAREL---YGEDWRENFLELNA 76
Score = 28.7 bits (65), Expect = 6.9
Identities = 10/19 (52%), Positives = 13/19 (68%)
Query: 494 SGVPGTGKTATVHAVMRKL 512
+G PGTGKT A+ R+L
Sbjct: 44 AGPPGTGKTTAALALAREL 62
>gnl|CDD|226415 COG3899, COG3899, Predicted ATPase [General function prediction
only].
Length = 849
Score = 30.4 bits (69), Expect = 2.9
Identities = 12/49 (24%), Positives = 24/49 (48%), Gaps = 1/49 (2%)
Query: 143 CREAEFQSIHRFLLSKISQSTTGCMYISGVPGTGKTATVHAVMRKLKQE 191
RE E + ++S+ + ++G G GK+A V+ V + + Q+
Sbjct: 4 GRETELAQL-LAAFDRVSKGRGEVVLVAGESGIGKSALVNEVHKPITQQ 51
Score = 30.4 bits (69), Expect = 2.9
Identities = 12/49 (24%), Positives = 24/49 (48%), Gaps = 1/49 (2%)
Query: 467 CREAEFQSIHRFLLSKISQSTTGCMYISGVPGTGKTATVHAVMRKLKQE 515
RE E + ++S+ + ++G G GK+A V+ V + + Q+
Sbjct: 4 GRETELAQL-LAAFDRVSKGRGEVVLVAGESGIGKSALVNEVHKPITQQ 51
>gnl|CDD|222290 pfam13654, AAA_32, AAA domain. This family includes a wide variety
of AAA domains including some that have lost essential
nucleotide binding residues in the P-loop.
Length = 509
Score = 30.1 bits (69), Expect = 3.0
Identities = 11/34 (32%), Positives = 18/34 (52%), Gaps = 2/34 (5%)
Query: 168 YISGVPGTGKTATVHAVMRKL--KQEIGDKFVYV 199
++ G PGTG+T V + + K+ D + YV
Sbjct: 34 FVLGEPGTGRTTLVRRYLEERAKKEPTPDDWCYV 67
>gnl|CDD|233959 TIGR02639, ClpA, ATP-dependent Clp protease ATP-binding subunit
clpA. [Protein fate, Degradation of proteins, peptides,
and glycopeptides].
Length = 730
Score = 30.0 bits (68), Expect = 3.4
Identities = 32/109 (29%), Positives = 47/109 (43%), Gaps = 24/109 (22%)
Query: 164 TGCMYISGVPGTGKTATVHAVMRKLKQEIGDKFVYVEMNALSIPEPKRAYSRILELLLNV 223
G G G GKT + ++L +E+G + +M S K SR+ +
Sbjct: 483 VGSFLFVGPTGVGKTE----LAKQLAEELGVHLLRFDM---SEYMEKHTVSRL------I 529
Query: 224 DAPP-----EQAKAMLERHFTRPHGPCVLLIDELDYLCNKRQDVIYNIL 267
+PP EQ + + PH CVLL+DE++ K IYNIL
Sbjct: 530 GSPPGYVGFEQGGLLTDAVRKHPH--CVLLLDEIE----KAHPDIYNIL 572
>gnl|CDD|237864 PRK14950, PRK14950, DNA polymerase III subunits gamma and tau;
Provisional.
Length = 585
Score = 30.2 bits (68), Expect = 3.4
Identities = 22/82 (26%), Positives = 27/82 (32%), Gaps = 3/82 (3%)
Query: 64 LDTAPVE-NLRPRSLKSTKKSQHATPSSHKPNV--STPSSIKKTVTLTPTLPKRLTAPLT 120
L+ A +E L P K A PS +P ST + P P R TA
Sbjct: 351 LELAVIEALLVPVPAPQPAKPTAAAPSPVRPTPAPSTRPKAAAAANIPPKEPVRETATPP 410
Query: 121 PSTPLQLARESLHLSRVPESLP 142
P P +A H L
Sbjct: 411 PVPPRPVAPPVPHTPESAPKLT 432
Score = 30.2 bits (68), Expect = 3.4
Identities = 22/82 (26%), Positives = 27/82 (32%), Gaps = 3/82 (3%)
Query: 388 LDTAPVE-NLRPRSLKSTKKSQHATPSSHKPNV--STPSSIKKTVTLTPTLPKRLTAPLT 444
L+ A +E L P K A PS +P ST + P P R TA
Sbjct: 351 LELAVIEALLVPVPAPQPAKPTAAAPSPVRPTPAPSTRPKAAAAANIPPKEPVRETATPP 410
Query: 445 PSTPLQLARESLHLSRVPESLP 466
P P +A H L
Sbjct: 411 PVPPRPVAPPVPHTPESAPKLT 432
>gnl|CDD|237475 PRK13695, PRK13695, putative NTPase; Provisional.
Length = 174
Score = 29.1 bits (66), Expect = 3.8
Identities = 15/37 (40%), Positives = 19/37 (51%), Gaps = 4/37 (10%)
Query: 168 YISGVPGTGKTATVHAVMRKLKQEIGDK---FVYVEM 201
I+G PG GKT V + LK+E G K F E+
Sbjct: 4 GITGPPGVGKTTLVLKIAELLKEE-GYKVGGFYTEEV 39
Score = 29.1 bits (66), Expect = 4.2
Identities = 11/24 (45%), Positives = 14/24 (58%)
Query: 492 YISGVPGTGKTATVHAVMRKLKQE 515
I+G PG GKT V + LK+E
Sbjct: 4 GITGPPGVGKTTLVLKIAELLKEE 27
>gnl|CDD|129843 TIGR00760, araD, L-ribulose-5-phosphate 4-epimerase. E. coli has
two genes, sgaE and sgbE (YiaS), that are very close
homologs of araD, the established L-ribulose-5-phosphate
4-epimerase of E. coli. SgbE, part of an operon for
L-xylulose metabolism, also has L-ribulose-5-phosphate
4-epimerase activity; L-xylulose-5-phosphate may be
converted into L-ribulose-5-phosphate by another product
of that operon. The homolog to this family from
Mycobacterium smegmatis is flanked by putative araB and
araA genes, consistent with it also being araD [Energy
metabolism, Sugars].
Length = 231
Score = 29.4 bits (66), Expect = 4.2
Identities = 12/32 (37%), Positives = 18/32 (56%), Gaps = 1/32 (3%)
Query: 212 AYSRILELLLNVDAPPEQAKAMLERHFTRPHG 243
AY + LN PP Q + +L++H+ R HG
Sbjct: 194 AYMALFSRQLNPQLPPMQ-QTLLDKHYLRKHG 224
>gnl|CDD|232804 TIGR00064, ftsY, signal recognition particle-docking protein FtsY.
There is a weak division between FtsY and SRP54; both
are GTPases. In E.coli, ftsY is an essential gene
located in an operon with cell division genes ftsE and
ftsX, but its apparent function is as the signal
recognition particle docking protein [Protein fate,
Protein and peptide secretion and trafficking].
Length = 272
Score = 29.5 bits (67), Expect = 4.3
Identities = 10/21 (47%), Positives = 14/21 (66%)
Query: 171 GVPGTGKTATVHAVMRKLKQE 191
GV G GKT T+ + KLK++
Sbjct: 79 GVNGVGKTTTIAKLANKLKKQ 99
Score = 29.5 bits (67), Expect = 4.3
Identities = 10/21 (47%), Positives = 14/21 (66%)
Query: 495 GVPGTGKTATVHAVMRKLKQE 515
GV G GKT T+ + KLK++
Sbjct: 79 GVNGVGKTTTIAKLANKLKKQ 99
>gnl|CDD|232945 TIGR00376, TIGR00376, DNA helicase, putative. The gene product may
represent a DNA helicase. Eukaryotic members of this
family have been characterized as binding certain
single-stranded G-rich DNA sequences (GGGGT and GGGCT).
A number of related proteins are characterized as
helicases [DNA metabolism, DNA replication,
recombination, and repair].
Length = 637
Score = 29.8 bits (67), Expect = 4.5
Identities = 11/20 (55%), Positives = 15/20 (75%)
Query: 169 ISGVPGTGKTATVHAVMRKL 188
I G PGTGKT T+ ++R+L
Sbjct: 178 IHGPPGTGKTRTLVELIRQL 197
Score = 29.8 bits (67), Expect = 4.5
Identities = 11/20 (55%), Positives = 15/20 (75%)
Query: 493 ISGVPGTGKTATVHAVMRKL 512
I G PGTGKT T+ ++R+L
Sbjct: 178 IHGPPGTGKTRTLVELIRQL 197
>gnl|CDD|224122 COG1201, Lhr, Lhr-like helicases [General function prediction
only].
Length = 814
Score = 29.5 bits (67), Expect = 4.8
Identities = 16/46 (34%), Positives = 21/46 (45%), Gaps = 3/46 (6%)
Query: 32 IGPKKKSKSKYWDWVSSSSDEEE---KEENHVIGKLDTAPVENLRP 74
G K ++ Y+ + DE E K+E IG LD VE L P
Sbjct: 454 FGRGKGTRMIYYMNYGTIPDEAEYTVKDETKYIGTLDEEFVERLLP 499
>gnl|CDD|206722 cd04157, Arl6, Arf-like 6 (Arl6) GTPase. Arl6 (Arf-like 6) forms a
subfamily of the Arf family of small GTPases. Arl6
expression is limited to the brain and kidney in adult
mice, but it is expressed in the neural plate and
somites during embryogenesis, suggesting a possible role
for Arl6 in early development. Arl6 is also believed to
have a role in cilia or flagella function. Several
proteins have been identified that bind Arl6, including
Arl6 interacting protein (Arl6ip), and SEC61beta, a
subunit of the heterotrimeric conducting channel SEC61p.
Based on Arl6 binding to these effectors, Arl6 is also
proposed to play a role in protein transport, membrane
trafficking, or cell signaling during hematopoietic
maturation. At least three specific homozygous Arl6
mutations in humans have been found to cause
Bardet-Biedl syndrome, a disorder characterized by
obesity, retinopathy, polydactyly, renal and cardiac
malformations, learning disabilities, and
hypogenitalism. Older literature suggests that Arl6 is a
part of the Arl4/Arl7 subfamily, but analyses based on
more recent sequence data place Arl6 in its own
subfamily.
Length = 162
Score = 28.5 bits (64), Expect = 5.2
Identities = 28/87 (32%), Positives = 42/87 (48%), Gaps = 8/87 (9%)
Query: 229 QAKAMLERHFTRPHGPCVLLIDELDYLCNKRQDVIYNILE-YLNKP--KSRLI-ILCIAN 284
+ + + E ++ G + +ID D L R V + LE LN P K R I IL AN
Sbjct: 57 KYRGLWEHYYKNIQG-IIFVIDSSDRL---RMVVAKDELELLLNHPDIKHRRIPILFYAN 112
Query: 285 TMDLPERTLKGKVSSRMGLTRLMFKPY 311
MDLP+ K++ + L + KP+
Sbjct: 113 KMDLPDALTAVKITQLLCLENIKDKPW 139
>gnl|CDD|238675 cd01379, MYSc_type_III, Myosin motor domain, type III myosins.
Myosin III has been shown to play a role in the vision
process in insects and in hearing in mammals. Myosin
III, an unconventional myosin, does not form dimers.
This catalytic (head) domain has ATPase activity and
belongs to the larger group of P-loop NTPases. Myosins
are actin-dependent molecular motors that play important
roles in muscle contraction, cell motility, and
organelle transport. The head domain is a molecular
motor, which utilizes ATP hydrolysis to generate
directed movement toward the plus end along actin
filaments. A cyclical interaction between myosin and
actin provides the driving force. Rates of ATP
hydrolysis and consequently the speed of movement along
actin filaments vary widely, from about 0.04 micrometer
per second for myosin I to 4.5 micrometer per second for
myosin II in skeletal muscle. Myosin II moves in
discrete steps about 5-10 nm long and generates 1-5
piconewtons of force. Upon ATP binding, the myosin head
dissociates from an actin filament. ATP hydrolysis
causes the head to pivot and associate with a new actin
subunit. The release of Pi causes the head to pivot and
move the filament (power stroke). Release of ADP
completes the cycle.
Length = 653
Score = 29.4 bits (66), Expect = 5.6
Identities = 11/32 (34%), Positives = 21/32 (65%)
Query: 157 SKISQSTTGCMYISGVPGTGKTATVHAVMRKL 188
S ++ + C+ ISG G+GKT + H ++++L
Sbjct: 79 SLVTYNQDQCIVISGESGSGKTESAHLLVQQL 110
Score = 29.4 bits (66), Expect = 5.6
Identities = 11/32 (34%), Positives = 21/32 (65%)
Query: 481 SKISQSTTGCMYISGVPGTGKTATVHAVMRKL 512
S ++ + C+ ISG G+GKT + H ++++L
Sbjct: 79 SLVTYNQDQCIVISGESGSGKTESAHLLVQQL 110
>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 = 5.9
Identities = 12/48 (25%), Positives = 20/48 (41%), Gaps = 12/48 (25%)
Query: 168 YISGVPGTGKTATVHAVMRKLKQEIGDKFVYVEMNALSIPEPKRAYSR 215
++ G PG GK+ + R L + +G +P+ YSR
Sbjct: 2 WLYGPPGCGKSTLAKYLARALLKHLG------------LPKKDSVYSR 37
>gnl|CDD|116340 pfam07726, AAA_3, ATPase family associated with various cellular
activities (AAA). This Pfam entry includes some of the
AAA proteins not detected by the pfam00004 model.
Length = 131
Score = 27.9 bits (63), Expect = 6.0
Identities = 8/20 (40%), Positives = 10/20 (50%)
Query: 169 ISGVPGTGKTATVHAVMRKL 188
+ GVPG KT + R L
Sbjct: 4 LEGVPGLAKTLLARTLARSL 23
Score = 27.9 bits (63), Expect = 6.0
Identities = 8/20 (40%), Positives = 10/20 (50%)
Query: 493 ISGVPGTGKTATVHAVMRKL 512
+ GVPG KT + R L
Sbjct: 4 LEGVPGLAKTLLARTLARSL 23
>gnl|CDD|161676 TIGR00041, DTMP_kinase, thymidylate kinase. Function:
phosphorylation of DTMP to form DTDP in both de novo and
salvage pathways of DTTP synthesis. Catalytic activity:
ATP + thymidine 5'-phosphate = ADP + thymidine
5'-diphosphate [Purines, pyrimidines, nucleosides, and
nucleotides, Nucleotide and nucleoside
interconversions].
Length = 195
Score = 28.5 bits (64), Expect = 6.1
Identities = 19/67 (28%), Positives = 27/67 (40%), Gaps = 6/67 (8%)
Query: 169 ISGVPGTGKTATVHAVMRKLKQEIGDKFVYVEMNALSIPEPKRAYSRILELLLNVDAPPE 228
I G+ G GKT + + + L++ D E P +I ELLLN + P
Sbjct: 8 IEGIDGAGKTTQANLLKKLLQENGYDVLFTRE------PGGTPIGEKIRELLLNENDEPL 61
Query: 229 QAKAMLE 235
KA
Sbjct: 62 TDKAEAL 68
>gnl|CDD|182683 PRK10733, hflB, ATP-dependent metalloprotease; Reviewed.
Length = 644
Score = 29.2 bits (65), Expect = 6.3
Identities = 23/89 (25%), Positives = 39/89 (43%), Gaps = 20/89 (22%)
Query: 171 GVPGTGKTATVHAVMRKLKQEIGDKFVYVEMNALSIPEPKRAYSRILELLLNVDAPPEQA 230
G PGTGKT A+ + K +P + S +E+ + V A +
Sbjct: 192 GPPGTGKTLLAKAIAGEAK----------------VPFFTISGSDFVEMFVGVGA--SRV 233
Query: 231 KAMLERHFTRPHGPCVLLIDELDYLCNKR 259
+ M E+ + PC++ IDE+D + +R
Sbjct: 234 RDMFEQ--AKKAAPCIIFIDEIDAVGRQR 260
>gnl|CDD|129027 smart00791, Agglutinin, Amaranthus caudatus agglutinin or
amaranthin is a lectin from the ancient South American
crop, amaranth grain. Although its biological function
is unknown, it has a high binding specificity for the
methyl-glycoside of the T-antigen, found linked to
serine or threonine residues of cell surface
glycoproteins. The protein is comprised of a homodimer,
with each homodimer consisting of two beta-trefoil
domains.
Length = 139
Score = 28.0 bits (62), Expect = 6.5
Identities = 16/92 (17%), Positives = 37/92 (40%), Gaps = 3/92 (3%)
Query: 344 PTSRSEIFCANHYTNEKKSKSKYWDWVSSSSDEEEKEENHVIGKLDTAPVENLRPRSLKS 403
PT + ++YTN+ S YW ++D +E + + + ++ +R +++
Sbjct: 47 PTYNGLVHIKSNYTNKFWRLSHYWITA-DANDPDENKSACTLFRPLYVEMKKIRLLNVQL 105
Query: 404 TKKSQHATPSSHKPNVSTPSSIKKTVTLTPTL 435
++ T K VS ++ + L
Sbjct: 106 GHYTKRYT--VGKSFVSCLNAASSQIDTKAVL 135
>gnl|CDD|147949 pfam06068, TIP49, TIP49 C-terminus. This family consists of the
C-terminal region of several eukaryotic and archaeal
RuvB-like 1 (Pontin or TIP49a) and RuvB-like 2 (Reptin
or TIP49b) proteins. The N-terminal domain contains the
pfam00004 domain. In zebrafish, the liebeskummer (lik)
mutation, causes development of hyperplastic embryonic
hearts. lik encodes Reptin, a component of a
DNA-stimulated ATPase complex. Beta-catenin and Pontin,
a DNA-stimulated ATPase that is often part of complexes
with Reptin, are in the same genetic pathways. The
Reptin/Pontin ratio serves to regulate heart growth
during development, at least in part via the
beta-catenin pathway. TBP-interacting protein 49 (TIP49)
was originally identified as a TBP-binding protein, and
two related proteins are encoded by individual genes,
tip49a and b. Although the function of this gene family
has not been elucidated, they are supposed to play a
critical role in nuclear events because they interact
with various kinds of nuclear factors and have DNA
helicase activities.TIP49a has been suggested to act as
an autoantigen in some patients with autoimmune
diseases.
Length = 395
Score = 29.2 bits (66), Expect = 6.5
Identities = 12/38 (31%), Positives = 21/38 (55%), Gaps = 4/38 (10%)
Query: 166 CMYISGVPGTGKTATVHAVMRKLKQEIGDKFVYVEMNA 203
+ I+G PGTGKTA A+ +E+G+ + ++
Sbjct: 52 AVLIAGPPGTGKTALAIAI----SKELGEDTPFCPISG 85
>gnl|CDD|234589 PRK00042, tpiA, triosephosphate isomerase; Provisional.
Length = 250
Score = 28.5 bits (65), Expect = 6.8
Identities = 14/32 (43%), Positives = 18/32 (56%), Gaps = 10/32 (31%)
Query: 174 GTGKTAT------VHAVMR----KLKQEIGDK 195
GTGKTAT VHA +R +L E+ +K
Sbjct: 172 GTGKTATPEQAQEVHAFIRAVLAELYGEVAEK 203
Score = 28.5 bits (65), Expect = 6.8
Identities = 14/32 (43%), Positives = 18/32 (56%), Gaps = 10/32 (31%)
Query: 498 GTGKTAT------VHAVMR----KLKQEIGDK 519
GTGKTAT VHA +R +L E+ +K
Sbjct: 172 GTGKTATPEQAQEVHAFIRAVLAELYGEVAEK 203
>gnl|CDD|163593 TIGR03881, KaiC_arch_4, KaiC domain protein, PAE1156 family.
Members of this protein family are archaeal
single-domain KaiC_related proteins, homologous to the
Cyanobacterial circadian clock cycle protein KaiC, an
autokinase/autophosphorylase that has two copies of the
domain.
Length = 229
Score = 28.6 bits (64), Expect = 7.2
Identities = 13/32 (40%), Positives = 19/32 (59%), Gaps = 3/32 (9%)
Query: 169 ISGVPGTGKT-ATVHAVMRKLKQEIGDKFVYV 199
++G PGTGKT +H + L+ GD +YV
Sbjct: 25 VTGEPGTGKTIFCLHFAYKGLRD--GDPVIYV 54
>gnl|CDD|224401 COG1484, DnaC, DNA replication protein [DNA replication,
recombination, and repair].
Length = 254
Score = 28.5 bits (64), Expect = 7.4
Identities = 28/150 (18%), Positives = 49/150 (32%), Gaps = 39/150 (26%)
Query: 167 MYISGVPGTGKTATVHAVMRKLKQEIGDKFVYVEMNAL------SIPEPKRAYSRILELL 220
+ + G PG GKT A+ +L + G +++ L + E R ++L L
Sbjct: 108 LVLLGPPGVGKTHLAIAIGNELLK-AGISVLFITAPDLLSKLKAAFDE-GRLEEKLLREL 165
Query: 221 LNVDAPPEQAKAMLERHFTRPHGPCVLLIDELDYLCN--KRQDVIYN-ILEYLNKPKSRL 277
VD +L+ID++ Y + D+++ I L
Sbjct: 166 KKVD---------------------LLIIDDIGYEPFSQEEADLLFQLISRRYE--SRSL 202
Query: 278 IILCIANTMDLPERTLKGKVSSRMGLTRLM 307
II T +L L+
Sbjct: 203 II-----TSNLSFGEWDELFGDDALTEALL 227
>gnl|CDD|222036 pfam13304, AAA_21, AAA domain.
Length = 256
Score = 28.6 bits (63), Expect = 7.6
Identities = 11/43 (25%), Positives = 21/43 (48%), Gaps = 1/43 (2%)
Query: 238 FTRPHGPCVLLIDELD-YLCNKRQDVIYNILEYLNKPKSRLII 279
+ +LLIDE + L K + +L+ L++ ++LI
Sbjct: 205 LSALPKGSLLLIDEPENGLHPKLLRKLVELLKELSEKGAQLIF 247
>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 = 29.1 bits (65), Expect = 8.0
Identities = 25/92 (27%), Positives = 35/92 (38%), Gaps = 26/92 (28%)
Query: 171 GVPGTGKTATVHAVMRKLKQEIGDKFVYV---EMNALSIPEPKRAYSRILELLLNVDAPP 227
G PGTGKT AV E G F+ V E+ + + E ++A I
Sbjct: 494 GPPGTGKTLLAKAV----ATESGANFIAVRGPEILSKWVGESEKAIREIFR--------- 540
Query: 228 EQAKAMLERHFTRPHGPCVLLIDELDYLCNKR 259
KA R P ++ DE+D + R
Sbjct: 541 ---KA-------RQAAPAIIFFDEIDAIAPAR 562
>gnl|CDD|218114 pfam04501, Baculo_VP39, Baculovirus major capsid protein VP39.
This family constitutes the 39 kDa major capsid protein
of the Baculoviridae.
Length = 300
Score = 28.5 bits (64), Expect = 8.1
Identities = 11/65 (16%), Positives = 25/65 (38%), Gaps = 10/65 (15%)
Query: 311 YDHHQLQEIVQNRLKNNNCFHPDAVQLVARLEPPTSR------SEIFCANHYTNEKKSKS 364
Y++ + + L+ N F D ++V + T+R + +C+ N S
Sbjct: 121 YNNKAAIDRICQSLRYNENFQDDTYKVVELVYSVTARILAITNPDRYCSRVINNS----S 176
Query: 365 KYWDW 369
+ +
Sbjct: 177 RSFGV 181
>gnl|CDD|224577 COG1663, LpxK, Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope
biogenesis, outer membrane].
Length = 336
Score = 28.4 bits (64), Expect = 8.2
Identities = 8/19 (42%), Positives = 10/19 (52%)
Query: 172 VPGTGKTATVHAVMRKLKQ 190
V GTGKT V + L+
Sbjct: 57 VGGTGKTPVVIWLAEALQA 75
Score = 28.4 bits (64), Expect = 8.2
Identities = 8/19 (42%), Positives = 10/19 (52%)
Query: 496 VPGTGKTATVHAVMRKLKQ 514
V GTGKT V + L+
Sbjct: 57 VGGTGKTPVVIWLAEALQA 75
>gnl|CDD|240365 PTZ00333, PTZ00333, triosephosphate isomerase; Provisional.
Length = 255
Score = 28.3 bits (64), Expect = 8.3
Identities = 13/27 (48%), Positives = 17/27 (62%), Gaps = 7/27 (25%)
Query: 174 GTGKTAT------VHAVMRK-LKQEIG 193
GTGK AT VHA +RK L +++G
Sbjct: 175 GTGKVATPEQAQEVHAFIRKWLAEKVG 201
Score = 28.3 bits (64), Expect = 8.3
Identities = 13/27 (48%), Positives = 17/27 (62%), Gaps = 7/27 (25%)
Query: 498 GTGKTAT------VHAVMRK-LKQEIG 517
GTGK AT VHA +RK L +++G
Sbjct: 175 GTGKVATPEQAQEVHAFIRKWLAEKVG 201
>gnl|CDD|240299 PTZ00164, PTZ00164, bifunctional dihydrofolate
reductase-thymidylate synthase; Provisional.
Length = 514
Score = 28.5 bits (64), Expect = 9.1
Identities = 12/38 (31%), Positives = 18/38 (47%), Gaps = 1/38 (2%)
Query: 257 NKRQDVIYNILEYL-NKPKSRLIILCIANTMDLPERTL 293
+ D + NI+E + N P R +IL N L + L
Sbjct: 356 GQGVDQLKNIIETIKNNPDDRRLILTAWNPSALDQMAL 393
>gnl|CDD|224144 COG1223, COG1223, Predicted ATPase (AAA+ superfamily) [General
function prediction only].
Length = 368
Score = 28.6 bits (64), Expect = 9.2
Identities = 23/83 (27%), Positives = 34/83 (40%), Gaps = 20/83 (24%)
Query: 171 GVPGTGKTATVHAVMRKLKQEIGDKFVYVEMNALSIPEPKRAYSRILELLLNVDAPPEQA 230
G PGTGKT A+ + K + + + A + I E +V +
Sbjct: 158 GPPGTGKTMMAKALANEAKVPL------LLVKATEL---------IGE---HVGDGARRI 199
Query: 231 KAMLERHFTRPHGPCVLLIDELD 253
+ ER R PC++ IDELD
Sbjct: 200 HELYER--ARKAAPCIVFIDELD 220
>gnl|CDD|226372 COG3854, SpoIIIAA, ncharacterized protein conserved in bacteria
[Function unknown].
Length = 308
Score = 28.3 bits (63), Expect = 9.2
Identities = 25/106 (23%), Positives = 44/106 (41%), Gaps = 14/106 (13%)
Query: 155 LLSKISQSTTGCMYISGVPGTGKTATVHAVMRKL----KQEIGDKFVYV----EMNALSI 206
L+ + Q+ I G P GKT + + R L Q + K + E+
Sbjct: 128 LIKDLYQNGWLNTLIIGPPQVGKTTLLRDIARLLSDGINQFLPKKVGIIDERSEIAGCLN 187
Query: 207 PEPKRAYSRILELLLNVDAPPEQAKAMLERHFTRPHGPCVLLIDEL 252
P+ R +++L D P +A+ M+ R P V+++DE+
Sbjct: 188 GVPQHGRGRRMDVL---DPCP-KAEGMMM--AIRSMSPEVIIVDEI 227
>gnl|CDD|216275 pfam01063, Aminotran_4, Aminotransferase class IV. The D-amino
acid transferases (D-AAT) are required by bacteria to
catalyze the synthesis of D-glutamic acid and D-alanine,
which are essential constituents of bacterial cell wall
and are the building block for other D-amino acids.
Despite the difference in the structure of the
substrates, D-AATs and L-ATTs have strong similarity.
Length = 231
Score = 28.2 bits (63), Expect = 9.5
Identities = 12/85 (14%), Positives = 25/85 (29%), Gaps = 8/85 (9%)
Query: 300 RMGLTRLMFKPYDHHQLQEIVQNRLKNNNCFHPDAVQLVA--------RLEPPTSRSEIF 351
R L+ P L++I+Q L+ N ++++ P + I
Sbjct: 11 RRSAKALIGLPLSIEDLRKIIQELLEANGPAGSGRLRILVSRGDGGRGLSPPEGAIPIIV 70
Query: 352 CANHYTNEKKSKSKYWDWVSSSSDE 376
+ + + SS
Sbjct: 71 SLIALASSAPPRLLITVKLRLSSYP 95
>gnl|CDD|237090 PRK12402, PRK12402, replication factor C small subunit 2; Reviewed.
Length = 337
Score = 28.4 bits (64), Expect = 9.8
Identities = 14/34 (41%), Positives = 20/34 (58%), Gaps = 1/34 (2%)
Query: 156 LSKISQSTTGC-MYISGVPGTGKTATVHAVMRKL 188
LS+ S + + G PG+GKTA V A+ R+L
Sbjct: 27 LSRAVDSPNLPHLLVQGPPGSGKTAAVRALAREL 60
Score = 28.4 bits (64), Expect = 9.8
Identities = 14/34 (41%), Positives = 20/34 (58%), Gaps = 1/34 (2%)
Query: 480 LSKISQSTTGC-MYISGVPGTGKTATVHAVMRKL 512
LS+ S + + G PG+GKTA V A+ R+L
Sbjct: 27 LSRAVDSPNLPHLLVQGPPGSGKTAAVRALAREL 60
>gnl|CDD|213340 cd05391, RasGAP_p120GAP, Ras-GTPase Activating Domain of p120.
p120GAP is a negative regulator of Ras that stimulates
hydrolysis of bound GTP to GDP. Once the Ras regulator
p120GAP, a member of the GAP protein family, is
recruited to the membrane, it is transiently immobilized
to interact with Ras-GTP. The down-regulation of Ras by
p120GAP is a critical step in the regulation of many
cellular processes, which is disrupted in approximately
30% of human cancers. p120GAP contains SH2, SH3, PH,
calcium- and lipid-binding domains, suggesting its
involvement in a complex network of cellular
interactions in vivo.
Length = 328
Score = 28.2 bits (63), Expect = 9.9
Identities = 26/91 (28%), Positives = 39/91 (42%), Gaps = 5/91 (5%)
Query: 191 EIGDKFVYVEMNALSIPEPKRAYSRILELLLNVDAPP---EQAKAMLERHFTRPHGPCVL 247
E G K Y+E I + K L+ L NV P E ++ L R H CV
Sbjct: 232 EFGAKEPYMEGVNPFIKKNKERMIMFLDELGNVPELPDTTEHSRTDLSRDLAALHEICVA 291
Query: 248 LIDELDYLCNKRQDV--IYNILEYLNKPKSR 276
DEL L N+R + + + E L + +++
Sbjct: 292 HSDELRTLSNERGALKKLLAVTELLQQKQNQ 322
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
0.313 0.128 0.369
Gapped
Lambda K H
0.267 0.0596 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 25,402,591
Number of extensions: 2378478
Number of successful extensions: 2538
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2505
Number of HSP's successfully gapped: 136
Length of query: 520
Length of database: 10,937,602
Length adjustment: 101
Effective length of query: 419
Effective length of database: 6,457,848
Effective search space: 2705838312
Effective search space used: 2705838312
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 61 (27.6 bits)