RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy1409
(320 letters)
>gnl|CDD|203593 pfam07200, Mod_r, Modifier of rudimentary (Mod(r)) protein. This
family represents a conserved region approximately 150
residues long within a number of eukaryotic proteins
that show homology with Drosophila melanogaster Modifier
of rudimentary (Mod(r)) proteins. The N-terminal half of
Mod(r) proteins is acidic, whereas the C-terminal half
is basic, and both of these regions are represented in
this family. Members of this family include the Vps37
subunit of the endosomal sorting complex ESCRT-I, a
complex involved in recruiting transport machinery for
protein sorting at the multivesicular body (MVB). The
yeast ESCRT-I complex consists of three proteins (Vps23,
Vps28 and Vps37). The mammalian homologue of Vps37
interacts with Tsg101 (Pfam: PF05743) through its mod(r)
domain and its function is essential for lysosomal
sorting of EGF receptors.
Length = 150
Score = 100 bits (252), Expect = 4e-26
Identities = 56/118 (47%), Positives = 79/118 (66%)
Query: 127 NEQKEMLIASNKSLAEYNLSQEEALLEKKSQLLDLNEQLTQLSKSVESKVELIKSHKNNV 186
N +K+ L+A N+SLAE NL +E L E K+QL D E+L +L + E K + + ++
Sbjct: 33 NLEKDALLAQNESLAEENLEKEPQLEELKAQLRDKYEELKKLEEKYEEKKQQLDELSSSY 92
Query: 187 STDTVLALLQTAASEIEEESEKVPEEFLNGTIDVDKFLETFTPKRILMHLRRIKADKM 244
S D +LALLQ AAS+ EEESE++ E+FL G ID+D FL+ + KR L HLRR K +K+
Sbjct: 93 SPDALLALLQVAASKAEEESEELAEKFLEGEIDLDTFLQKYKDKRTLYHLRRAKEEKL 150
Score = 69.3 bits (170), Expect = 2e-14
Identities = 48/112 (42%), Positives = 67/112 (59%), Gaps = 2/112 (1%)
Query: 11 LDISELKELVNDEETFNNFTKEATATLTTESNEQKEMLIASNKSLAEYNLSQEEALLEKK 70
L + ELKEL+ DE+ F E + N +K+ L+A N+SLAE NL +E L E K
Sbjct: 4 LSLDELKELLQDEDALLEFVLELPQV--QDLNLEKDALLAQNESLAEENLEKEPQLEELK 61
Query: 71 SQLLDLNEQLTQLSKSVESKVELIKSHKNNVSTDTVLALLQTAASEIEEESE 122
+QL D E+L +L + E K + + ++ S D +LALLQ AAS+ EEESE
Sbjct: 62 AQLRDKYEELKKLEEKYEEKKQQLDELSSSYSPDALLALLQVAASKAEEESE 113
>gnl|CDD|224117 COG1196, Smc, Chromosome segregation ATPases [Cell division and
chromosome partitioning].
Length = 1163
Score = 40.5 bits (95), Expect = 0.001
Identities = 42/184 (22%), Positives = 78/184 (42%), Gaps = 7/184 (3%)
Query: 1 MENLESLLEHLD--ISELKELVNDEETFNNFTKEATATLTTESNEQKEMLIASNKSLAEY 58
E LE +E L+ I EL+E +++ E ++ L E E + L E
Sbjct: 823 RERLEQEIEELEEEIEELEEKLDELEEELEELEKELEELKEELEELEAEKEELEDELKEL 882
Query: 59 NLSQEEALLEKKSQLLDLNEQLTQLSKSVESKVELIKSHKNNVS-TDTVLALLQTAASEI 117
+EE + +L +L +L +L + +E E ++ + + + L L+ E
Sbjct: 883 EEEKEEL----EEELRELESELAELKEEIEKLRERLEELEAKLERLEVELPELEEELEEE 938
Query: 118 EEESETTESNEQKEMLIASNKSLAEYNLSQEEALLEKKSQLLDLNEQLTQLSKSVESKVE 177
E++ TE + E L ++L NL E E + + +L Q L ++ E +E
Sbjct: 939 YEDTLETELEREIERLEEEIEALGPVNLRAIEEYEEVEERYEELKSQREDLEEAKEKLLE 998
Query: 178 LIKS 181
+I+
Sbjct: 999 VIEE 1002
Score = 40.1 bits (94), Expect = 0.001
Identities = 48/216 (22%), Positives = 86/216 (39%), Gaps = 15/216 (6%)
Query: 4 LESLLEHLDISELKELVNDEETFNNFTKEATATLTTESNEQKEMLIASNKSLAEYNLSQ- 62
LE LLE L+ +L++L E + L E E + L+ + L +
Sbjct: 191 LEDLLEELE-KQLEKLERQAEKAERY-----QELKAELRELELALLLAKLKELRKELEEL 244
Query: 63 EEALLEKKSQLLDLNEQLTQLSKSVES-KVELIKSHKNNVSTDTVLALLQTAASEIEEES 121
EE L + +L +L E+L + K +E K EL + + L L+ E+E E
Sbjct: 245 EEELSRLEEELEELQEELEEAEKEIEELKSELEELREELEELQEELLELKEEIEELEGEI 304
Query: 122 ETTESNEQKEMLIASNKSLAEYNLSQEEALLEKKSQLLDLNEQLTQLSKSVESKVELIKS 181
E+ E L + L E +E + K +L + L +L + + E +
Sbjct: 305 SLLR--ERLEELENELEELEERLEELKEKIEALKEELEERETLLEELEQLLAELEEAKEE 362
Query: 182 HKNNVST-----DTVLALLQTAASEIEEESEKVPEE 212
+ +S + + L+ +E+E E ++ E
Sbjct: 363 LEEKLSALLEELEELFEALREELAELEAELAEIRNE 398
Score = 39.7 bits (93), Expect = 0.002
Identities = 47/250 (18%), Positives = 97/250 (38%), Gaps = 39/250 (15%)
Query: 2 ENLESLLEHLD-----ISELKELVNDEETFNNFTKEATATLTTESNEQKEMLIASNKSLA 56
E LE L E L+ + EL+E + E E L + L
Sbjct: 744 EELEELEEELEELQERLEELEEELESLE------------------EALAKLKEEIEELE 785
Query: 57 EYNLSQEEALLEKKSQLLDLNEQLTQLSKSVESKVELIKSHKNNVSTDTVLALLQTAASE 116
E + +E L E + +L + +L L + +ES + + L+ E
Sbjct: 786 EKRQALQEELEELEEELEEAERRLDALERELESLEQRRER-------------LEQEIEE 832
Query: 117 IEEESETTESN-EQKEMLIASNKSLAEYNLSQEEALLEKKSQLLDLNEQLTQLSKSVESK 175
+EEE E E ++ E + + E + E L +K +L D ++L + + +E +
Sbjct: 833 LEEEIEELEEKLDELEEELEELEKELEELKEELEELEAEKEELEDELKELEEEKEELEEE 892
Query: 176 VELIKSHKNNVSTDTVLALLQTAASEIEEESEKVPEEFLNGTIDVDKFLETFTPKRILMH 235
+ ++S + + + L+ E+E + E++ E ++++ E +
Sbjct: 893 LRELESELAELKEE--IEKLRERLEELEAKLERLEVELPELEEELEEEYEDTLETELERE 950
Query: 236 LRRIKADKMA 245
+ R++ + A
Sbjct: 951 IERLEEEIEA 960
>gnl|CDD|220708 pfam10349, WWbp, WW-domain ligand protein. The WWbp domain is
characterized by several short PY and PT-like motifs of
the PPPPY form. These appear to bind directly to the WW
domains of WWP1 and WWP2 and other such diverse proteins
as dystrophin and YAP (Yes-associated protein). This is
the WW-domain binding protein WWbp via PY and PY_like
motifs. The presence of a phosphotyrosine residue in the
pWBP-1 peptide abolishes WW domain binding which
suggests a potential regulatory role for tyrosine
phosphorylation in modulating WW domain-ligand
interactions. Given the likelihood that WWP1 and WWP2
function as E3 ubiquitin-protein ligases, it is possible
that initial substrate-specific recognition occurs via
WW domain-substrate protein interaction followed by
ubiquitin transfer and subsequent proteolysis. This
domain lies just downstream of the GRAM (pfam02893) in
many members.
Length = 111
Score = 36.6 bits (85), Expect = 0.003
Identities = 22/83 (26%), Positives = 29/83 (34%), Gaps = 1/83 (1%)
Query: 235 HLRRIKADKMAEMLTKRNSFGSPTHNGVGGHNGGSSSFGGMYPPVPVPPMGPGYPVSGGG 294
+ R+ A++ G G H ++G P P P P YP G
Sbjct: 26 AMERL-AERAQRAQPVSRESGYYPPPGAYVHLEPLPAYGQYAAPPPYGPPPPYYPAPPGV 84
Query: 295 MPLPHIQMTPYPQLPQMPTPSYP 317
P P + Y PQ P P YP
Sbjct: 85 YPTPPPPNSGYMADPQEPPPPYP 107
>gnl|CDD|234070 TIGR02956, TMAO_torS, TMAO reductase sytem sensor TorS. This
protein, TorS, is part of a regulatory system for the
torCAD operon that encodes the pterin molybdenum
cofactor-containing enzyme trimethylamine-N-oxide (TMAO)
reductase (TorA), a cognate chaperone (TorD), and a
penta-haem cytochrome (TorC). TorS works together with
the inducer-binding protein TorT and the response
regulator TorR. TorS contains histidine kinase ATPase
(pfam02518), HAMP (pfam00672), phosphoacceptor
(pfam00512), and phosphotransfer (pfam01627) domains and
a response regulator receiver domain (pfam00072) [Signal
transduction, Two-component systems].
Length = 968
Score = 38.2 bits (89), Expect = 0.006
Identities = 38/156 (24%), Positives = 61/156 (39%), Gaps = 29/156 (18%)
Query: 42 NEQKEMLIASNKSLAEYNLSQEEALLEKKSQLLDLNEQLTQLSKSVESKVELIKSHKNNV 101
Q E L+ S K+L E + E+ L + + D+ + L QL SV ++
Sbjct: 83 TLQSETLLHSLKALGELPFN-EDLLARLEVLVKDIIDTLAQLGLSVGERI---------- 131
Query: 102 STDTVLALLQTAASEIEEESETTESNEQKEMLIASNKSLAEYNLSQEEALLEKKSQL--- 158
T+ A LQ + E+ E ++ Q ++ AS +LA N+S L+E
Sbjct: 132 ---TLQAQLQQLSRELSEAAQEISELSQSQVANASTIALA--NVSGIYDLIESGKNDQVY 186
Query: 159 ----------LDLNEQLTQLSKSVESKVELIKSHKN 184
LDL E+L +L + I K
Sbjct: 187 QALDDLIEVDLDLAERLNELRLLALRVLNTIDDTKT 222
>gnl|CDD|226889 COG4487, COG4487, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 438
Score = 37.1 bits (86), Expect = 0.010
Identities = 30/161 (18%), Positives = 54/161 (33%), Gaps = 5/161 (3%)
Query: 17 KELVNDEETFNNFTKEATATLTTESNEQKEMLIASNKSLAEYNLSQEEALLEKKSQLLDL 76
KEL EE N KE + + + L L L E E + +L
Sbjct: 64 KELSQLEEQLINQKKEQKNLFNEQIKQFELALQDEIAKLEALELLNLEKDKELELLEKEL 123
Query: 77 NEQLTQLSKSVESKVELIKSHKNNVSTDTVLALLQTAASEIEEESETTESNEQKEMLIAS 136
+E +L K +++ E+I+ + + ++ E+ E +K
Sbjct: 124 DELSKELQKQLQNTAEIIE-----KKRENNKNEERLKFENEKKLEESLELEREKFEEQLH 178
Query: 137 NKSLAEYNLSQEEALLEKKSQLLDLNEQLTQLSKSVESKVE 177
+L EE K + L L + S+ V+ +
Sbjct: 179 EANLDLEFKENEEQRESKWAILKKLKRRAELGSQQVQGEAL 219
>gnl|CDD|223496 COG0419, SbcC, ATPase involved in DNA repair [DNA replication,
recombination, and repair].
Length = 908
Score = 37.0 bits (86), Expect = 0.011
Identities = 48/208 (23%), Positives = 82/208 (39%), Gaps = 26/208 (12%)
Query: 1 MENLESLLEHLDISELKELVNDEETFNNFTKEATATLTTESNEQKEMLIASNKSLAEYNL 60
+E++E LLE L+ ELKEL EE +E E+ L + L
Sbjct: 198 LEDIEDLLEALE-EELKELKKLEEIQEEQEEEELEQEIEALEERLAELEEEKERLE---- 252
Query: 61 SQEEALLEKKSQLLDLNEQLTQLSKSVESKVELIKSHKNNVSTDTVLALLQTAASEIEEE 120
E K++LL++ + K E ++ ++ + + L+ EIEE
Sbjct: 253 -------ELKARLLEIESLELEALKIREEELRELERL--LEELEEKIERLEELEREIEEL 303
Query: 121 SETTESNEQKEMLIASNKSLAEYNLSQEEALLEKKSQLLDLNEQLTQLSKSVESKVELIK 180
E E L+ + L E S EE L + + +L L +L +L++ +L++
Sbjct: 304 ---EEELEGLRALLEELEELLEKLKSLEERLEKLEEKLEKLESELEELAEEKNELAKLLE 360
Query: 181 SHKNNVSTDTVLALLQTAASEIEEESEK 208
L+ E+E+E EK
Sbjct: 361 ERLK---------ELEERLEELEKELEK 379
Score = 32.4 bits (74), Expect = 0.32
Identities = 43/183 (23%), Positives = 74/183 (40%), Gaps = 12/183 (6%)
Query: 42 NEQKEMLIASNKSLAEYNLSQEEALLEKKSQLLDLNEQLTQLSKSVESKVELIKSHKNNV 101
E+ E L+ KSL E EE L + +S+L +L E+ +L+K +E +++ ++ +
Sbjct: 314 LEELEELLEKLKSLEERLEKLEEKLEKLESELEELAEEKNELAKLLEERLKELEERLEEL 373
Query: 102 STDTV--LALLQTAASEIEEESETTESNEQKEMLIASNKSLAEYNLSQEEALLEK-KSQL 158
+ L L+ I+E E I E L + E LE+ + ++
Sbjct: 374 EKELEKALERLKQLEEAIQELKEELAELSAALEEIQEELEELEKELEELERELEELEEEI 433
Query: 159 LDLNEQLTQLSKSVESKVELIKSHK---------NNVSTDTVLALLQTAASEIEEESEKV 209
L EQ+ QL EL + + +L L + E+EEE +
Sbjct: 434 KKLEEQINQLESKELMIAELAGAGEKCPVCGQELPEEHEKELLELYELELEELEEELSRE 493
Query: 210 PEE 212
EE
Sbjct: 494 KEE 496
Score = 31.3 bits (71), Expect = 0.75
Identities = 53/238 (22%), Positives = 89/238 (37%), Gaps = 36/238 (15%)
Query: 1 MENLESLLEHLD--ISELKELVNDEETFNNFTKEATATLTTESNEQKEMLIASNKSLAEY 58
++ LE LE L+ + + E + E KE A L+ E +E L K L E
Sbjct: 363 LKELEERLEELEKELEKALERLKQLEEAIQELKEELAELSAALEEIQEELEELEKELEEL 422
Query: 59 NLSQEEALLEKKSQLLDLNEQLTQLSKSVESKVELIKSHK---------NNVSTDTVLAL 109
E L E + ++ L EQ+ QL EL + + +L L
Sbjct: 423 ----ERELEELEEEIKKLEEQINQLESKELMIAELAGAGEKCPVCGQELPEEHEKELLEL 478
Query: 110 LQTAASEIEEE------------------SETTESNEQKEMLIASNKSLAEYNLSQEEAL 151
+ E+EEE E E E+ L+ ++L E + E L
Sbjct: 479 YELELEELEEELSREKEEAELREEIEELEKELRELEEELIELLELEEALKEELEEKLEKL 538
Query: 152 LEKKSQLLDLNEQLTQLSKSVESKVELIKSH-KNNVSTDTVLALLQTAASEIEEESEK 208
+L +L E+L + ++ ++ ++ + L LL+T E+EE E+
Sbjct: 539 ENLLEELEELKEKL--QLQQLKEELRQLEDRLQELKELLEELRLLRTRKEELEELRER 594
>gnl|CDD|218324 pfam04912, Dynamitin, Dynamitin. Dynamitin is a subunit of the
microtubule-dependent motor complex and in implicated in
cell adhesion by binding to macrophage-enriched
myristoylated alanine-rice C kinase substrate
(MacMARCKS).
Length = 376
Score = 35.1 bits (81), Expect = 0.036
Identities = 30/161 (18%), Positives = 61/161 (37%), Gaps = 10/161 (6%)
Query: 39 TESNEQKEMLIASNKSLAEYNLSQ-EEALLEKKSQLLDLNEQLTQLSKSVESKVELIKSH 97
++ + + +A E L + L ++D ++ LSK + +++E K
Sbjct: 120 SKEEKISTVALAGVVETLEKQLETLKLEQLLGSDTVIDSSDTQGNLSKKLLTQLEEFKKS 179
Query: 98 KNNVSTDTVLALLQTAASEIEE------ESETTESNEQKEMLIASNKSLAEYNLSQEEAL 151
N ++ + AS++ E + E N+ + L L + +
Sbjct: 180 TNKSASPDKEQTKLSQASKLAELEKRLHKLEAAIGNDP-DKLSRLTADTESLPLLEAVSR 238
Query: 152 LEKKSQLLDLN--EQLTQLSKSVESKVELIKSHKNNVSTDT 190
+ K+ LLD + + + Q +SV K+E I K D
Sbjct: 239 ISAKAALLDPDHLDHIEQRLQSVLGKMESIDEKKAASLADA 279
>gnl|CDD|235206 PRK04031, PRK04031, DNA primase; Provisional.
Length = 408
Score = 34.4 bits (80), Expect = 0.063
Identities = 21/88 (23%), Positives = 34/88 (38%), Gaps = 9/88 (10%)
Query: 170 KSVE--SKVELIKSHKNNVSTDTVLALL-------QTAASEIEEESEKVPEEFLNGTIDV 220
K VE +K E+ K+ +N V + L L E EE+ EK P E
Sbjct: 246 KEVEELTKKEIAKALRNKVPVEQYLEELGKKAQKAAEKVKEEEEKPEKEPAEQPEPEEKE 305
Query: 221 DKFLETFTPKRILMHLRRIKADKMAEML 248
+ + + H++ +K A +L
Sbjct: 306 PAPVPAEKEETVREHIKELKGTLEARLL 333
>gnl|CDD|219837 pfam08430, Fork_head_N, Forkhead N-terminal region. The region
described in this family is found towards the N-terminus
of various eukaryotic fork head/HNF-3-related
transcription factors (which contain the pfam00250
domain). These proteins play key roles in embryogenesis,
maintenance of differentiated cell states, and
tumorigenesis.
Length = 137
Score = 33.0 bits (75), Expect = 0.065
Identities = 13/53 (24%), Positives = 16/53 (30%)
Query: 255 GSPTHNGVGGHNGGSSSFGGMYPPVPVPPMGPGYPVSGGGMPLPHIQMTPYPQ 307
G G G SS + P + MGP SGG + Q
Sbjct: 66 GYGGAGSPMGMMGMSSMGTSLSPSGTMGAMGPMPAGSGGSLSPNMSMSRASSQ 118
>gnl|CDD|220369 pfam09731, Mitofilin, Mitochondrial inner membrane protein.
Mitofilin controls mitochondrial cristae morphology.
Mitofilin is enriched in the narrow space between the
inner boundary and the outer membranes, where it forms a
homotypic interaction and assembles into a large
multimeric protein complex. The first 78 amino acids
contain a typical amino-terminal-cleavable mitochondrial
presequence rich in positive-charged and hydroxylated
residues and a membrane anchor domain. In addition, it
has three centrally located coiled coil domains.
Length = 493
Score = 34.6 bits (80), Expect = 0.068
Identities = 40/183 (21%), Positives = 77/183 (42%), Gaps = 23/183 (12%)
Query: 2 ENLESLLEHL--DISELKELVND-----EETFNNFTKEATATLTTESNEQKEMLIASNKS 54
++LESL+ ++ +L + + + EE KE L ++ E+ + S ++
Sbjct: 159 DDLESLIASAKEELDQLSKKLAELKAEEEEELERALKEKREELLSKLEEELLARLESKEA 218
Query: 55 LAEYNLSQE-EALLEKKSQLLD--LNEQLTQLSKSVESKVELIKSHKNNVSTDTVLALLQ 111
E L E E E+ + + L ++L + +++ E K KN ++ LQ
Sbjct: 219 ALEKQLRLEFEREKEELRKKYEEKLRQELERQAEAHEQK------LKNELAL--QAIELQ 270
Query: 112 TAASEIEEESETTESNEQKEMLIASNKSLAEYNLSQEEALLEKKSQLLDLNEQLTQLSKS 171
++ +E E N + L N L E L+ +S+ D N ++ QL +
Sbjct: 271 REFNKEIKEKVEEERNGRLAKLAELNSRLKGL-----EKALDSRSEAEDENHKVQQLWLA 325
Query: 172 VES 174
VE+
Sbjct: 326 VEA 328
>gnl|CDD|221952 pfam13166, AAA_13, AAA domain. This family of domains contain a
P-loop motif that is characteristic of the AAA
superfamily. Many of the proteins in this family are
conjugative transfer proteins. This family includes the
PrrC protein that is thought to be the active component
of the anticodon nuclease.
Length = 713
Score = 34.2 bits (79), Expect = 0.081
Identities = 30/179 (16%), Positives = 71/179 (39%), Gaps = 27/179 (15%)
Query: 12 DISELKELVND-EETFNNFTKE-----ATATLTTESNEQKEMLIASNKSLAEYNLSQEEA 65
I +L+EL++ E +E T +E E L A ++L E +
Sbjct: 283 LIEQLEELIDKYESHIEKALEELESILDTEKENSEFKLDVEELKALLEALEEILEKNLQK 342
Query: 66 LLEKKS------QLLDLNEQLTQLSKSVESKVELIKSHKNNVSTDTVLALLQTAASEI-- 117
L EK +L + + + ++ +++ ELI+ H + A ++
Sbjct: 343 LEEKLKDPSTSIELESITDLIESINDIIDAINELIREHNEKIDNLK--KEKNKAKKKLWL 400
Query: 118 ----EEESETTESNEQKEMLIASNKSLAEYNLSQEEALLEKKSQLLDLNEQLTQLSKSV 172
E + + ++K+ K++ S E+ + + ++++ L +++ +L K +
Sbjct: 401 HLVAELKEDIDAYQKEKK---GLEKAIN----SLEKEIKQLEAEIKALEKEIKELEKQL 452
Score = 31.5 bits (72), Expect = 0.65
Identities = 21/133 (15%), Positives = 50/133 (37%), Gaps = 10/133 (7%)
Query: 78 EQLTQL-SKSVESKVELIKSHKNNVSTDTVLALLQTAASEIEEESETTESNEQKEMLIAS 136
+L + + +E ++ + + AL + + ++ E E +E E L A
Sbjct: 270 AELEAHFDEEYQELIEQLEELIDKYESHIEKALEELESI-LDTEKENSEFKLDVEELKAL 328
Query: 137 NKSLAEYNLSQEEALLEKKS------QLLDLNEQLTQLSKSVESKVELIKSHKNNVSTDT 190
++L E + L EK +L + + + ++ +++ ELI+ H +
Sbjct: 329 LEALEEILEKNLQKLEEKLKDPSTSIELESITDLIESINDIIDAINELIREHNEKIDNLK 388
Query: 191 VLALLQTAASEIE 203
A ++
Sbjct: 389 --KEKNKAKKKLW 399
Score = 28.4 bits (64), Expect = 5.5
Identities = 33/162 (20%), Positives = 64/162 (39%), Gaps = 24/162 (14%)
Query: 54 SLAEYNLSQEEALLEKKSQLLDLNEQLTQLSKSVESKVELIKSHKNNVSTDTVLALLQTA 113
+L E N+ E + E K +L L E++ QL +E K E ++ KN
Sbjct: 85 TLGEENIEIEAQIEELKKELKKLEEKIEQLEAEIEKKEEELEKAKN------------KF 132
Query: 114 ASEIEEESETTESNEQKEML--IASNKSLAEYNLSQEEALLEKKSQLLDLNEQLTQLSKS 171
+ ++ + E L + K+ E L + ++++ S LL L E+L K+
Sbjct: 133 LDKAWKKLAKKYDSNLSEALKGLNYKKNFKEKLLKELKSVILNASSLLSL-EELKAKIKT 191
Query: 172 VES----KVELIKSHKNNVSTDTVLALLQ-----TAASEIEE 204
+ S ++ L+ + +L+ ++ I E
Sbjct: 192 LFSSNKPELALLTLSVIDFDEIEQAEILEKSIIGSSDVPISE 233
>gnl|CDD|233757 TIGR02168, SMC_prok_B, chromosome segregation protein SMC, common
bacterial type. SMC (structural maintenance of
chromosomes) proteins bind DNA and act in organizing and
segregating chromosomes for partition. SMC proteins are
found in bacteria, archaea, and eukaryotes. This family
represents the SMC protein of most bacteria. The smc
gene is often associated with scpB (TIGR00281) and scpA
genes, where scp stands for segregation and condensation
protein. SMC was shown (in Caulobacter crescentus) to be
induced early in S phase but present and bound to DNA
throughout the cell cycle [Cellular processes, Cell
division, DNA metabolism, Chromosome-associated
proteins].
Length = 1179
Score = 34.3 bits (79), Expect = 0.090
Identities = 48/211 (22%), Positives = 77/211 (36%), Gaps = 24/211 (11%)
Query: 2 ENLESLLEHLDISELKELVNDEETFNNFTKEATATLTTESNEQKEMLIASNKSLAEYNLS 61
E LE + L EL EL E E E+ + E L A + L E +
Sbjct: 743 EQLEERIAQLSK-ELTEL-EAEIEELEERLEEAEEELAEAEAEIEELEAQIEQLKEELKA 800
Query: 62 QEEALLEKKSQLLDLNEQLTQLSKSVESKVELIKSHKNNVSTDTVLALLQTAASEIEEES 121
EAL E L +LT L++ + E ++S + + A + ++EE+
Sbjct: 801 LREALDE-------LRAELTLLNEEAANLRERLESLERRI------AATERRLEDLEEQI 847
Query: 122 ETTESNEQKEMLIASNKSLAEYNLSQEEAL--LEKKSQLLD-LNEQLTQLSKSVESKVEL 178
E E E + + + E EE LE L E L L +E E
Sbjct: 848 E-----ELSEDIESLAAEIEELEELIEELESELEALLNERASLEEALALLRSELEELSEE 902
Query: 179 IKSHKNNVST-DTVLALLQTAASEIEEESEK 208
++ ++ S L L+ +++E E
Sbjct: 903 LRELESKRSELRRELEELREKLAQLELRLEG 933
Score = 33.9 bits (78), Expect = 0.12
Identities = 55/240 (22%), Positives = 97/240 (40%), Gaps = 22/240 (9%)
Query: 14 SELKELVNDEETFNNFTKEATATLTTESNEQKEMLIASNKSLAEYNLSQEEALLEKKSQL 73
E++EL E E L E +E+ E L Q LE+ S+
Sbjct: 677 REIEELEEKIEELEEKIAELEKALAELRKELEEL---------EEELEQLRKELEELSRQ 727
Query: 74 LD-LNEQLTQLSKSVESKVELIKS-HKNNVSTDTVLALLQTAASEIEEESETTESNEQKE 131
+ L + L +L VE E I K + + L+ E EEE E + E
Sbjct: 728 ISALRKDLARLEAEVEQLEERIAQLSKELTELEAEIEELEERLEEAEEELAEAE--AEIE 785
Query: 132 MLIASNKSLAEYNLSQEEALLEKKSQLLDLNEQLTQLS---KSVESKVELIKSHKNNVS- 187
L A + L E + EAL E +++L LNE+ L +S+E ++ + ++
Sbjct: 786 ELEAQIEQLKEELKALREALDELRAELTLLNEEAANLRERLESLERRIAATERRLEDLEE 845
Query: 188 -TDTVLALLQTAASEIEEESEKVPEEFLNGTIDVDKFLETFTPKRILMHLRRIKADKMAE 246
+ + +++ A+EIEE E + E +++ L + L R + ++++E
Sbjct: 846 QIEELSEDIESLAAEIEELEELIEEL----ESELEALLNERASLEEALALLRSELEELSE 901
Score = 33.9 bits (78), Expect = 0.13
Identities = 40/186 (21%), Positives = 73/186 (39%), Gaps = 20/186 (10%)
Query: 13 ISELKELVNDEETFNNFTKEATATLTTESNEQKEMLIASNKSLAEYNLSQEEALLEKKSQ 72
+ ELKE + E + L + E +E L +A+ L + A L + +
Sbjct: 346 LEELKEELESLEAELEELEAELEELESRLEELEEQLETLRSKVAQ--LELQIASLNNEIE 403
Query: 73 LLDLNEQLTQLSKSVESKVELIKSHKNNVSTDTVLALLQTAASEIEEESETTESNEQKEM 132
L+ +L +L E + I+ L + E++ E E E E+ E
Sbjct: 404 RLE--ARLERLEDRRERLQQEIEELLKK--------LEEAELKELQAELEELE--EELEE 451
Query: 133 LIASNKSLAEYNLSQEEALLEKKSQLLDLNEQLTQLSKSVESKVELIKSHKNNVS--TDT 190
L + L E E L E + L +L QL ++++ ++ + N+ ++
Sbjct: 452 LQEELERLEEALEELREELEEAEQALDAAERELAQLQ----ARLDSLERLQENLEGFSEG 507
Query: 191 VLALLQ 196
V ALL+
Sbjct: 508 VKALLK 513
Score = 32.3 bits (74), Expect = 0.38
Identities = 41/188 (21%), Positives = 73/188 (38%), Gaps = 13/188 (6%)
Query: 1 MENLESLLEHL--DISELKELVNDEETFNNFTKEATATLTTESNEQKEMLIASNKSLAEY 58
+E+LE +E L DI L + + E E + L NE+ + A +E
Sbjct: 840 LEDLEEQIEELSEDIESLAAEIEELEELIE---ELESELEALLNERASLEEALALLRSEL 896
Query: 59 NLSQEEALLEKKSQLLDLNEQLTQLSKSVESKVELIKSHKNNVST--DTVLALLQTAASE 116
EE L E +S+ +L +L +L + + ++ + + + + E
Sbjct: 897 EELSEE-LRELESKRSELRRELEELREKLAQLELRLEGLEVRIDNLQERLSEEYSLTLEE 955
Query: 117 IEEESETTESNEQK-----EMLIASNKSLAEYNLSQEEALLEKKSQLLDLNEQLTQLSKS 171
E E +E++ + L K L NL+ E E K + L Q L+++
Sbjct: 956 AEALENKIEDDEEEARRRLKRLENKIKELGPVNLAAIEEYEELKERYDFLTAQKEDLTEA 1015
Query: 172 VESKVELI 179
E+ E I
Sbjct: 1016 KETLEEAI 1023
>gnl|CDD|235175 PRK03918, PRK03918, chromosome segregation protein; Provisional.
Length = 880
Score = 34.3 bits (79), Expect = 0.097
Identities = 42/184 (22%), Positives = 79/184 (42%), Gaps = 7/184 (3%)
Query: 32 EATATLTTESNEQKEMLIASNKSLAEYNLSQEEALLEKKSQLLDLNEQLTQLSKSVESKV 91
E E ++ E L S + L E EE + E K ++ +L E++ +L + E
Sbjct: 234 EELKEEIEELEKELESLEGSKRKLEEKIRELEERIEELKKEIEELEEKVKELKELKEKAE 293
Query: 92 ELIKSHKNNVSTDTVLALLQTAASEIEEESETTESNEQKEMLIASNKSLAEYNLSQEEAL 151
E IK + L ++ S +EEE ++ + K L ++
Sbjct: 294 EYIKLSEFYEEYLDELREIEKRLSRLEEEIN----GIEERIKELEEKEERLEELKKKLKE 349
Query: 152 LEKKSQLLDLNEQLTQLSKSVESKVELIKSHKNNVSTDTV---LALLQTAASEIEEESEK 208
LEK+ + L+ +L + +K+ + ++E +K ++ + + L L+ A EIEEE K
Sbjct: 350 LEKRLEELEERHELYEEAKAKKEELERLKKRLTGLTPEKLEKELEELEKAKEEIEEEISK 409
Query: 209 VPEE 212
+
Sbjct: 410 ITAR 413
Score = 30.0 bits (68), Expect = 2.1
Identities = 50/202 (24%), Positives = 81/202 (40%), Gaps = 15/202 (7%)
Query: 22 DEETFNNFTKEATATLTTESNEQKEMLIASNKSLAEYNLSQEEALLEKKSQLLDLNEQLT 81
EE +E TA L E KE I + L + E +L+K+S+L+ L E
Sbjct: 446 TEEHRKELLEEYTAELKRIEKELKE--IEEKERKLRKELRELEKVLKKESELIKLKELAE 503
Query: 82 QLSKSVESKVELI---KSHKNNVSTDTVLALLQTAASEIEE-ESETTESNEQKEMLIASN 137
QL K +E K++ + K + + L EI+ + E + E K+ L
Sbjct: 504 QL-KELEEKLKKYNLEELEKKAEEYEKLKEKLIKLKGEIKSLKKELEKLEELKKKLAELE 562
Query: 138 KSLAEYNLSQEEALLEKK------SQLLDLNEQLTQLSKSVESKVELIKSHKNNVSTDTV 191
K L E L +E A L K+ + +L E+L +L +EL + K +
Sbjct: 563 KKLDE--LEEELAELLKELEELGFESVEELEERLKELEPFYNEYLELKDAEKELEREEKE 620
Query: 192 LALLQTAASEIEEESEKVPEEF 213
L L+ + EE + +
Sbjct: 621 LKKLEEELDKAFEELAETEKRL 642
Score = 28.5 bits (64), Expect = 5.2
Identities = 56/230 (24%), Positives = 90/230 (39%), Gaps = 25/230 (10%)
Query: 1 MENLESLLEHLDISELKELVNDEETFNNFTKEATATLTTES---NEQKEMLIASNKSLAE 57
++ LE L+ ++ EL++ E + KE L E ++ E L K LAE
Sbjct: 505 LKELEEKLKKYNLEELEK---KAEEYEK-LKEKLIKLKGEIKSLKKELEKLEELKKKLAE 560
Query: 58 Y-----NLSQEEALLEKK------SQLLDLNEQLTQLSKSVESKVELIKSHKNNVSTDTV 106
L +E A L K+ + +L E+L +L +EL + K +
Sbjct: 561 LEKKLDELEEELAELLKELEELGFESVEELEERLKELEPFYNEYLELKDAEKELEREEKE 620
Query: 107 LALLQTAASEIEEESETTESN--EQKEMLIASNKSLAEYNLSQ-EEALLEKKSQLLDLNE 163
L L+ + EE TE E ++ L K +E + E LE +L L
Sbjct: 621 LKKLEEELDKAFEELAETEKRLEELRKELEELEKKYSEEEYEELREEYLELSRELAGLRA 680
Query: 164 QLTQLSKSVESKVELIKSHKNNVST----DTVLALLQTAASEIEEESEKV 209
+L +L K E + ++ K + L L+ A +EE EKV
Sbjct: 681 ELEELEKRREEIKKTLEKLKEELEEREKAKKELEKLEKALERVEELREKV 730
>gnl|CDD|237258 PRK12903, secA, preprotein translocase subunit SecA; Reviewed.
Length = 925
Score = 34.3 bits (79), Expect = 0.098
Identities = 38/215 (17%), Positives = 81/215 (37%), Gaps = 32/215 (14%)
Query: 9 EHLD-ISELKE---LVNDEET--FNNFTKEATATLTTESNEQKEML--IASNKSLAEYNL 60
H+D + +L+ LV + + +T+E T +L IA + ++ +N
Sbjct: 726 NHIDTMDKLRSGVNLVQYSQKNPYQVYTEEGTKKF-------NILLQEIAYDVIVSLFNN 778
Query: 61 SQEEALLEKKSQLLDLNEQLTQLSKSVESKVELIKSHKNNVSTDTVLALLQTAASEIEEE 120
E +L L D + E ++I+S + + +Q + E
Sbjct: 779 PNAEKILIITEILSDGINNSDINDRPQELIDQIIESEEERLKA----LRIQREEMLMRPE 834
Query: 121 SETTESNEQKEMLIASNKSLAEYNLSQEEALLEKKSQLLDLNEQLTQLSKSVESKVELIK 180
+ EQK + L+E ++EE + ++ VE K + K
Sbjct: 835 ELELINEEQKNLKQEIKLELSEIQEAEEE-----------IQNINENKNEFVEFKNDPKK 883
Query: 181 SHKNNVSTDTVLALLQTAASEIEEESEKVPEEFLN 215
+K ++ D ++ L+ +S+ ++ EK ++
Sbjct: 884 LNKLIIAKDVLIKLVI--SSDEIKQDEKTTKKKKK 916
>gnl|CDD|237177 PRK12704, PRK12704, phosphodiesterase; Provisional.
Length = 520
Score = 34.0 bits (79), Expect = 0.11
Identities = 32/145 (22%), Positives = 64/145 (44%), Gaps = 15/145 (10%)
Query: 17 KELVNDEETFNNFTKEATATLTTESNEQKEMLIASNKSLAEYNLSQEEALLEKKSQLLDL 76
++ EE +EA +KE L+ + + + + E+ L E++++L L
Sbjct: 31 AKIKEAEEEAKRILEEAKKEA---EAIKKEALLEAKEEIHKLRNEFEKELRERRNELQKL 87
Query: 77 NEQLTQLSKSVESKVELIKSHKNNV-STDTVLALLQTAASEIEEESETTESNEQKEMLIA 135
++L Q ++++ K+EL++ + + + L Q + EEE E + +E+
Sbjct: 88 EKRLLQKEENLDRKLELLEKREEELEKKEKELEQKQQELEKKEEELEELIEEQLQELERI 147
Query: 136 SNKSLAEYNLSQEEALLEKKSQLLD 160
S L+ EEA K LL+
Sbjct: 148 S-------GLTAEEA----KEILLE 161
>gnl|CDD|219186 pfam06810, Phage_GP20, Phage minor structural protein GP20. This
family consists of several phage minor structural
protein GP20 sequences of around 180 residues in length.
The function of this family is unknown.
Length = 156
Score = 32.7 bits (75), Expect = 0.11
Identities = 23/120 (19%), Positives = 44/120 (36%), Gaps = 14/120 (11%)
Query: 61 SQEEALLEKKSQLLDLNEQLTQLSKSVESKVELIKSHKNNVSTDTVLALLQTAASEIEEE 120
+ + L + + L +QL K +E +L K K+N + L+ +EE
Sbjct: 17 NPKSKLDKANEERDSLKKQLKNRDKQIE---DLKKKVKDNEELQKKIEKLKQQNKTAKEE 73
Query: 121 SETTESNEQKEMLIASNKSLAEYNLSQEEALLE---------KKSQLLDLNEQLTQLSKS 171
E ++ + I +L + +A+ L L+EQ+ L +S
Sbjct: 74 YEAKLADTKLNNAI--ELALKKAKARNAKAVKALLDKDKLKLDDDGLKGLDEQIEALKES 131
>gnl|CDD|217051 pfam02463, SMC_N, RecF/RecN/SMC N terminal domain. This domain is
found at the N terminus of SMC proteins. The SMC
(structural maintenance of chromosomes) superfamily
proteins have ATP-binding domains at the N- and
C-termini, and two extended coiled-coil domains
separated by a hinge in the middle. The eukaryotic SMC
proteins form two kind of heterodimers: the SMC1/SMC3
and the SMC2/SMC4 types. These heterodimers constitute
an essential part of higher order complexes, which are
involved in chromatin and DNA dynamics. This family also
includes the RecF and RecN proteins that are involved in
DNA metabolism and recombination.
Length = 1162
Score = 34.2 bits (78), Expect = 0.11
Identities = 34/182 (18%), Positives = 64/182 (35%), Gaps = 7/182 (3%)
Query: 31 KEATATLTTESNEQKEMLIASNKSLAEYNLSQEEALLEKKSQLLDLNEQLTQLSKSVESK 90
KE L E+ E++I + + +E+A + L +L + +
Sbjct: 173 KERLKKLIEETENLAELIIDLEELKLQELKLKEQAKKALEYYQLKEKLELEEENLLYLDY 232
Query: 91 VELIKSHKNNVSTDTVLALLQTAASEIEEESETTESNEQKEMLIASNKSLAEYNLSQEEA 150
++L + + + + E ES E +++E+L K E ++
Sbjct: 233 LKLNEERIDLLQE-------LLRDEQEEIESSKQELEKEEEILAQVLKENKEEEKEKKLQ 285
Query: 151 LLEKKSQLLDLNEQLTQLSKSVESKVELIKSHKNNVSTDTVLALLQTAASEIEEESEKVP 210
E K + E ++L K KV+ + K + L E EE EK
Sbjct: 286 EEELKLLAKEEEELKSELLKLERRKVDDEEKLKESEKELKKLEKELKKEKEEIEELEKEL 345
Query: 211 EE 212
+E
Sbjct: 346 KE 347
>gnl|CDD|165142 PHA02777, PHA02777, major capsid L1 protein; Provisional.
Length = 555
Score = 33.9 bits (77), Expect = 0.12
Identities = 23/93 (24%), Positives = 38/93 (40%), Gaps = 12/93 (12%)
Query: 236 LRRIKADKMAEMLTKRNS-------FGSPTHNGVGGHNGGSSSFGGMYPPVPVPPMGPG- 287
+++I+ + A+ + K S G T G GG + G+ + G P +P +GPG
Sbjct: 31 IKKIEGNTPADKILKWGSTGVFFGGLGIGTGRGGGGTSLGAGAIGSARPSIPAGAIGPGD 90
Query: 288 -YPV-SGGGMPLPHIQMTPYPQLPQMPTPSYPF 318
P+ + G I+ P P PF
Sbjct: 91 IIPIDAEAGALAEEIE--LLPMAPISGRARDPF 121
>gnl|CDD|225638 COG3096, MukB, Uncharacterized protein involved in chromosome
partitioning [Cell division and chromosome partitioning].
Length = 1480
Score = 34.1 bits (78), Expect = 0.12
Identities = 28/156 (17%), Positives = 61/156 (39%), Gaps = 10/156 (6%)
Query: 28 NFTKEATATLTTESNEQKEMLIASNKSLAEYNLSQEEALLEKKSQLLDLNEQLTQLSKSV 87
+F+ +A + +E+++ E L + E L + ++QL N+ L L S
Sbjct: 969 HFSYSDSAEMLSENSDLNEKLRQRLEQAEAERTRAREQLRQHQAQLSQYNQVLASLKSSY 1028
Query: 88 ESKVELIKSHKNNVSTDTVLALLQTAASEIEEESETTESNEQKEMLIASNKSLAEYNLSQ 147
++K EL+ + + + A EE +E L + +
Sbjct: 1029 DTKKELLNELQQELQD------IGVRADSGAEERARIRRDELHAQLSTNRSRRNQL---- 1078
Query: 148 EEALLEKKSQLLDLNEQLTQLSKSVESKVELIKSHK 183
E+ L ++++ +L +L +L + E + + K
Sbjct: 1079 EKQLTFCEAEMDNLTRKLRKLERDYFEMREQVVTAK 1114
Score = 29.5 bits (66), Expect = 3.4
Identities = 14/64 (21%), Positives = 28/64 (43%)
Query: 124 TESNEQKEMLIASNKSLAEYNLSQEEALLEKKSQLLDLNEQLTQLSKSVESKVELIKSHK 183
+E+++ E L + E L + ++QL N+ L L S ++K EL+ +
Sbjct: 980 SENSDLNEKLRQRLEQAEAERTRAREQLRQHQAQLSQYNQVLASLKSSYDTKKELLNELQ 1039
Query: 184 NNVS 187
+
Sbjct: 1040 QELQ 1043
>gnl|CDD|218636 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 = 33.7 bits (77), Expect = 0.14
Identities = 35/178 (19%), Positives = 64/178 (35%), Gaps = 13/178 (7%)
Query: 12 DISELKELVNDEETFNNFTKEATATLTTESNEQKEMLIASNKSLAEYNLSQEEALLEKKS 71
D+SE++ + +T + L + E ++ L + K L Q +
Sbjct: 172 DLSEMQCRAQNADTELKLLESELEELREQLEECQKELAEAEKKLQSLTSEQAS-----SA 226
Query: 72 QLLDLNEQLTQLSKSVESKVELIKSHKNN-VSTDTVLALLQTAASEIEEESETTESNEQK 130
+ L + K E E++KS K + + L E + E NE
Sbjct: 227 DNSVKIKHLEEELKRYEQDAEVVKSMKEQLLQIPELERELAALREENRKLRSMKEDNE-- 284
Query: 131 EMLIASNKSLAEYNLSQEEALLEKKSQLLDLNEQLTQLSKSVESKVELIKSHKNNVST 188
L+ + L + E + EK L DL + +L ++S L++ N+ T
Sbjct: 285 --LLKEELEDLQSRLERFEKMREK---LADLELEKEKLENELKSWKSLLQDIGLNLRT 337
>gnl|CDD|148139 pfam06346, Drf_FH1, Formin Homology Region 1. This region is found
in some of the Diaphanous related formins (Drfs). It
consists of low complexity repeats of around 12
residues.
Length = 160
Score = 32.6 bits (74), Expect = 0.15
Identities = 15/42 (35%), Positives = 17/42 (40%), Gaps = 2/42 (4%)
Query: 273 GGMYPPVPVPPMGPGYPVS--GGGMPLPHIQMTPYPQLPQMP 312
G+ PP P P PG P G G P P P P +P
Sbjct: 119 PGVPPPPPPFPGAPGIPPPPPGMGSPPPPPFGFGVPAAPVLP 160
>gnl|CDD|129694 TIGR00606, rad50, rad50. All proteins in this family for which
functions are known are involvedin recombination,
recombinational repair, and/or non-homologous end
joining.They are components of an exonuclease complex
with MRE11 homologs. This family is distantly related to
the SbcC family of bacterial proteins.This family is
based on the phylogenomic analysis of JA Eisen (1999,
Ph.D. Thesis, Stanford University).
Length = 1311
Score = 33.1 bits (75), Expect = 0.23
Identities = 37/156 (23%), Positives = 58/156 (37%), Gaps = 25/156 (16%)
Query: 65 ALLEKKSQLLDLNEQLTQLSKSVESKVELIKSHKNNVSTDTVLALLQTAASEIEEESE-T 123
A K Q DL+ + Q+++ + K L T S+IE +
Sbjct: 809 AQQAAKLQGSDLDRTVQQVNQEKQEKQHE----------------LDTVVSKIELNRKLI 852
Query: 124 TESNEQKEMLIASNKSLAEYNLSQEEALLEKKSQLLDLNEQLTQLSKSVESKVELIKSHK 183
+ EQ + L + L L L ++ EQL +LS V+S + IK K
Sbjct: 853 QDQQEQIQHLKSKTNELKSEKLQIGTNLQRRQQ----FEEQLVELSTEVQSLIREIKDAK 908
Query: 184 NNVSTD-TVLALLQTAASEI---EEESEKVPEEFLN 215
S T L Q E+ +E S K ++ +N
Sbjct: 909 EQDSPLETFLEKDQQEKEELISSKETSNKKAQDKVN 944
Score = 30.0 bits (67), Expect = 1.9
Identities = 37/168 (22%), Positives = 65/168 (38%), Gaps = 15/168 (8%)
Query: 32 EATATLTTESNEQKEMLIASNKSLAEYNLSQEEALLEKKSQLLDLNEQLTQLSKSVESKV 91
E L + EQ + L + L L L ++ EQL +LS V+S +
Sbjct: 846 ELNRKLIQDQQEQIQHLKSKTNELKSEKLQIGTNLQRRQQ----FEEQLVELSTEVQSLI 901
Query: 92 ELIKSHKNNVSTD-TVLALLQTAASEIEEESETTESNEQKEM---------LIASNKSLA 141
IK K S T L Q E+ ET+ Q ++ + K +
Sbjct: 902 REIKDAKEQDSPLETFLEKDQQEKEELISSKETSNKKAQDKVNDIKEKVKNIHGYMKDIE 961
Query: 142 EY-NLSQEEALLEKKSQLLDLNEQLTQLSKSVESKVELIKSHKNNVST 188
+++ L +K+++L +N QL + K E E ++ + ++ T
Sbjct: 962 NKIQDGKDDYLKQKETELNTVNAQLEECEKHQEKINEDMRLMRQDIDT 1009
>gnl|CDD|233065 TIGR00634, recN, DNA repair protein RecN. All proteins in this
family for which functions are known are ATP binding
proteins involved in the initiation of recombination and
recombinational repair [DNA metabolism, DNA replication,
recombination, and repair].
Length = 563
Score = 32.8 bits (75), Expect = 0.23
Identities = 44/217 (20%), Positives = 78/217 (35%), Gaps = 45/217 (20%)
Query: 8 LEHLDIS--ELKELVNDEETFNNFTK------EATATLTTESNEQKEMLIASNKSLAEYN 59
LE D+ E + L +++ +N K A A L + + Q+ L+ L E
Sbjct: 201 LEEADLQPGEDEALEAEQQRLSNLEKLRELSQNALAALRGDVDVQEGSLLEG---LGEAQ 257
Query: 60 LSQEEALLEKKSQLLDLNEQLTQLSKSVESKVELIKSHKNNVSTDTVLALLQTAASEIEE 119
L+ ++ L +L++ V + + ++ LQ E+E
Sbjct: 258 LALAS----------VIDGSLRELAEQVGNALTEVEE---------ATRELQNYLDELEF 298
Query: 120 ESETTESNEQKEMLIASNKSLAE-YNLSQEEALLEKK------SQLLDLNEQLTQLSKSV 172
+ E E++ I K L Y S EE L + QL D +E L L + V
Sbjct: 299 DPERLNEIEERLAQI---KRLKRKYGASVEEVLEYAEKIKEELDQLDDSDESLEALEEEV 355
Query: 173 ESKVELIKSHKNNVSTDTVLALLQTAASEIEEESEKV 209
+ E + +S + AA + + E+
Sbjct: 356 DKLEEELDKAAVALSLIR-----RKAAERLAKRVEQE 387
>gnl|CDD|220950 pfam11029, DAZAP2, DAZ associated protein 2 (DAZAP2). DAZ
associated protein 2 has a highly conserved sequence
throughout evolution including a conserved polyproline
region and several SH2/SH3 binding sites. It occurs as a
single copy gene with a four-exon organisation and is
located on chromosome 12. It encodes a ubiquitously
expressed protein and binds to DAZ and DAZL1 through DAZ
repeats.
Length = 136
Score = 31.0 bits (70), Expect = 0.35
Identities = 12/49 (24%), Positives = 17/49 (34%), Gaps = 8/49 (16%)
Query: 277 PPVPVPPMGPGYPVSGGGMPLP-HIQMTPYPQLPQM-------PTPSYP 317
P +P YP +P+ + + P P M P P YP
Sbjct: 20 PQAQMPQASAPYPGPSMYLPMAQVMAVGPQSSHPPMAYYPIGAPPPVYP 68
>gnl|CDD|222449 pfam13908, Shisa, Wnt and FGF inhibitory regulator. Shisa is a
transcription factor-type molecule that physically
interacts with immature forms of the Wnt receptor
Frizzled and the FGF receptor within the endoplasmic
reticulum to inhibit their post-translational maturation
and trafficking to the cell surface.
Length = 177
Score = 31.3 bits (71), Expect = 0.38
Identities = 14/45 (31%), Positives = 14/45 (31%), Gaps = 8/45 (17%)
Query: 278 PVPVPPMGPGYPVSG-------GGMPLPHIQ-MTPYPQLPQMPTP 314
P P PG G GMP P P P L Q P
Sbjct: 130 PPSTAPSYPGPQYQGYHPMPPQPGMPAPPYSLQYPPPGLLQPQGP 174
>gnl|CDD|241448 cd13294, PH_ORP_plant, Plant Oxysterol binding protein related
protein Pleckstrin homology (PH) domain. Plant ORPs
contain a N-terminal PH domain and a C-terminal
OSBP-related domain. Not much is known about its
specific function in plants to date. Members here
include: Arabidopsis, spruce, and petunia. Oxysterol
binding proteins are a multigene family that is
conserved in yeast, flies, worms, mammals and plants.
In general OSBPs and ORPs have been found to be
involved in the transport and metabolism of cholesterol
and related lipids in eukaryotes. They all contain a
C-terminal oxysterol binding domain, and most contain
an N-terminal PH domain. OSBP PH domains bind to
membrane phosphoinositides and thus likely play an
important role in intracellular targeting. They are
members of the oxysterol binding protein (OSBP) family
which includes OSBP, OSBP-related proteins (ORP),
Goodpasture antigen binding protein (GPBP), and Four
phosphate adaptor protein 1 (FAPP1). They have a wide
range of purported functions including sterol
transport, cell cycle control, pollen development and
vessicle transport from Golgi recognize both PI lipids
and ARF proteins. PH domains have diverse functions,
but in general are involved in targeting proteins to
the appropriate cellular location or in the interaction
with a binding partner. They share little sequence
conservation, but all have a common fold, which is
electrostatically polarized. Less than 10% of PH
domains bind phosphoinositide phosphates (PIPs) with
high affinity and specificity. PH domains are
distinguished from other PIP-binding domains by their
specific high-affinity binding to PIPs with two vicinal
phosphate groups: PtdIns(3,4)P2, PtdIns(4,5)P2 or
PtdIns(3,4,5)P3 which results in targeting some PH
domain proteins to the plasma membrane. A few display
strong specificity in lipid binding. Any specificity is
usually determined by loop regions or insertions in the
N-terminus of the domain, which are not conserved
across all PH domains. PH domains are found in cellular
signaling proteins such as serine/threonine kinase,
tyrosine kinases, regulators of G-proteins, endocytotic
GTPases, adaptors, as well as cytoskeletal associated
molecules and in lipid associated enzymes.
Length = 100
Score = 30.2 bits (68), Expect = 0.42
Identities = 13/37 (35%), Positives = 20/37 (54%)
Query: 10 HLDISELKELVNDEETFNNFTKEATATLTTESNEQKE 46
HL +S ++E +D++ F FT T L ES E +
Sbjct: 45 HLKVSSIRESRSDDKKFYIFTGTKTLHLRAESREDRA 81
>gnl|CDD|224188 COG1269, NtpI, Archaeal/vacuolar-type H+-ATPase subunit I [Energy
production and conversion].
Length = 660
Score = 31.9 bits (73), Expect = 0.44
Identities = 40/201 (19%), Positives = 71/201 (35%), Gaps = 31/201 (15%)
Query: 15 ELKELVNDEETFNNFTKEATATLTTESNEQKEMLIASNKSLAEYNLSQEEALLEKKSQLL 74
L+E++ E F++ +E T L +E E L E LLE+ L
Sbjct: 96 SLEEVIKPAEKFSSEVEELTRKLEERLSELDE------------ELEDLEDLLEELEPLA 143
Query: 75 DLNEQLTQLSKSVESKVELIKSHKNNVSTDTVLALLQTAASEIEEESETTESNEQKEMLI 134
L+ L+ L V L + + AL+ E+ E E++ +
Sbjct: 144 YLDFDLSLLRGLKFLLVRLGLVRREKLE-----ALVGVIEDEVALYGENVEASVVIVVAH 198
Query: 135 ASNKSLAEYNLSQEEALLEKKSQLLDLNEQLTQLSKSVESKVELIKSHKNNVSTDTVLAL 194
+ + E +L ++ E S+ + E+I +
Sbjct: 199 GAEDLDKVSKILNELGF-----ELYEVPEFDGGPSELISELEEVI---------AEIQDE 244
Query: 195 LQTAASEIEEESEKVPEEFLN 215
L++ SE+E +EK+ EE L
Sbjct: 245 LESLRSELEALAEKIAEELLA 265
>gnl|CDD|179385 PRK02224, PRK02224, chromosome segregation protein; Provisional.
Length = 880
Score = 31.5 bits (72), Expect = 0.59
Identities = 41/214 (19%), Positives = 79/214 (36%), Gaps = 46/214 (21%)
Query: 32 EATATLTTESNEQKEMLIASNKSLAEYNLSQEEALLEKKSQLLDLNEQLTQLSKSV---- 87
E L + E +E L E EA+ +++ ++ +L E++ +L +
Sbjct: 349 EDADDLEERAEELREEAAELESELEE----AREAVEDRREEIEELEEEIEELRERFGDAP 404
Query: 88 ------ESKVELIKSHKNNVSTD--TVLALLQTAASEIEEESE----------------- 122
E +E ++ ++ + + A L+TA +EE
Sbjct: 405 VDLGNAEDFLEELREERDELREREAELEATLRTARERVEEAEALLEAGKCPECGQPVEGS 464
Query: 123 -----TTESNEQKEMLIASNKSLAEYNLSQEEALLEKKSQLLDLNEQLTQLSKSVESK-- 175
E E+ E L A + L E + E + E+ + DL E ++ + E +
Sbjct: 465 PHVETIEEDRERVEELEAELEDLEE----EVEEVEERLERAEDLVEAEDRIERLEERRED 520
Query: 176 -VELIKSHKNNVSTDTV-LALLQTAASEIEEESE 207
ELI + + L+ A+E+E E+E
Sbjct: 521 LEELIAERRETIEEKRERAEELRERAAELEAEAE 554
Score = 30.0 bits (68), Expect = 1.8
Identities = 47/207 (22%), Positives = 78/207 (37%), Gaps = 38/207 (18%)
Query: 38 TTESNEQKEMLIASNKSLAEYNLSQEEALLEKKSQLLDLNEQLTQLSKSVESK---VELI 94
E E+ E L A + L E + E + E+ + DL E ++ + E + ELI
Sbjct: 470 IEEDRERVEELEAELEDLEE----EVEEVEERLERAEDLVEAEDRIERLEERREDLEELI 525
Query: 95 KSHKNNVSTDTV-LALLQTAASEIEEESETT---------ESNEQKEMLIASNKSLAEYN 144
+ + L+ A+E+E E+E E+ E +E + N LAE
Sbjct: 526 AERRETIEEKRERAEELRERAAELEAEAEEKREAAAEAEEEAEEAREEVAELNSKLAELK 585
Query: 145 LSQE-------------------EALLEKKSQLLDLNEQ-LTQLSKSVESKVELIKSHKN 184
E E L EK+ L +LN++ +L++ E K EL
Sbjct: 586 ERIESLERIRTLLAAIADAEDEIERLREKREALAELNDERRERLAEKRERKRELEAEFDE 645
Query: 185 NVSTDTVLALLQTAASEIEEESEKVPE 211
+ + A +E+ EK+ E
Sbjct: 646 A-RIEEAREDKERAEEYLEQVEEKLDE 671
>gnl|CDD|216868 pfam02084, Bindin, Bindin.
Length = 239
Score = 31.0 bits (70), Expect = 0.66
Identities = 15/42 (35%), Positives = 16/42 (38%), Gaps = 2/42 (4%)
Query: 257 PTHNGVGGHNGG--SSSFGGMYPPVPVPPMGPGYPVSGGGMP 296
P G GG GG GGM + P G G G G P
Sbjct: 185 PGGGGYGGGGGGMGGGGGGGMGEMGGMGPQGGGGGYGGMGAP 226
>gnl|CDD|181619 PRK09039, PRK09039, hypothetical protein; Validated.
Length = 343
Score = 31.1 bits (71), Expect = 0.74
Identities = 27/119 (22%), Positives = 52/119 (43%), Gaps = 13/119 (10%)
Query: 55 LAEYNLSQEEALLEKKSQLLDLNEQLTQLSKSVESKVELIKSHKNNVSTDTVLALLQTAA 114
+A++ LS+E + K S L LN Q+ +L+ + L + ++ +A L+ +
Sbjct: 39 VAQFFLSRE--ISGKDSALDRLNSQIAELAD----LLSLERQGNQDLQDS--VANLRASL 90
Query: 115 SEIEEESETTES--NEQKEMLIASNKSLAEYN--LSQEEALLEKK-SQLLDLNEQLTQL 168
S E E ++ E A+ E L E+ + + +Q+ LN+Q+ L
Sbjct: 91 SAAEAERSRLQALLAELAGAGAAAEGRAGELAQELDSEKQVSARALAQVELLNQQIAAL 149
>gnl|CDD|219061 pfam06495, Transformer, Fruit fly transformer protein. This family
consists of transformer proteins from several Drosophila
species and also from Ceratitis capitata (Mediterranean
fruit fly). The transformer locus (tra) produces an RNA
processing protein that alternatively splices the
doublesex pre-mRNA in the sex determination hierarchy of
Drosophila melanogaster.
Length = 182
Score = 30.4 bits (68), Expect = 0.93
Identities = 15/51 (29%), Positives = 18/51 (35%), Gaps = 8/51 (15%)
Query: 266 NGGSSSFGGMYPPVPVPPMGPGYPVSGGGMPLPHIQMTPYPQLPQMPTPSY 316
+G +F P PVPP YP P P Y P P P +
Sbjct: 140 SGMQGAFPYGMLPRPVPPYFAPYPRP----PAPF----RYRAPPFRPHPRF 182
>gnl|CDD|220309 pfam09606, Med15, ARC105 or Med15 subunit of Mediator complex
non-fungal. The approx. 70 residue Med15 domain of the
ARC-Mediator co-activator is a three-helix bundle with
marked similarity to the KIX domain. The sterol
regulatory element binding protein (SREBP) family of
transcription activators use the ARC105 subunit to
activate target genes in the regulation of cholesterol
and fatty acid homeostasis. In addition, Med15 is a
critical transducer of gene activation signals that
control early metazoan development.
Length = 768
Score = 30.7 bits (69), Expect = 1.0
Identities = 15/50 (30%), Positives = 19/50 (38%), Gaps = 1/50 (2%)
Query: 268 GSSSFGGMYPPVPVPPMGPGYPVSGGGMPLPHIQMTPYPQLPQMPTPSYP 317
G + G + PM G P P P Q+ +PQ P PS P
Sbjct: 387 GYLNIQGNQGGLGANPMQQGQP-GMMSSPSPVPQVQTNQSMPQPPQPSVP 435
>gnl|CDD|219321 pfam07174, FAP, Fibronectin-attachment protein (FAP). This family
contains bacterial fibronectin-attachment proteins
(FAP). Family members are rich in alanine and proline,
are approximately 300 long, and seem to be restricted to
mycobacteria. These proteins contain a
fibronectin-binding motif that allows mycobacteria to
bind to fibronectin in the extracellular matrix.
Length = 297
Score = 30.6 bits (69), Expect = 1.1
Identities = 11/41 (26%), Positives = 12/41 (29%)
Query: 277 PPVPVPPMGPGYPVSGGGMPLPHIQMTPYPQLPQMPTPSYP 317
PP P P + P P P P P P P
Sbjct: 45 PPPPSTAAAAPAPAAPPPPPPPAAPPAPQPDDPNAAPPPPP 85
>gnl|CDD|205692 pfam13514, AAA_27, AAA domain. This domain is found in a number of
double-strand DNA break proteins. This domain contains a
P-loop motif.
Length = 1118
Score = 30.9 bits (70), Expect = 1.2
Identities = 36/202 (17%), Positives = 74/202 (36%), Gaps = 36/202 (17%)
Query: 59 NLSQEEALLEKKSQLLDLNEQ-LTQL--SKSVESKVELIKSHKNNVSTDTVLALLQTAAS 115
+ + E + + + LD E LT L + + EL+ + + +DT L
Sbjct: 816 EIEEAEKEVSEAAAALDEAEARLTALLRAARCTTIEELLAAVER---SDTYRELR----K 868
Query: 116 EIEEESETTESNEQKEMLIASNKSLAEYNLSQEEALLEK-KSQLLDLNEQLTQLSKS-VE 173
I T L A A + + A LE+ + +L E+L +L++
Sbjct: 869 RIAALERTLVRAGGGLSLEALVAEAAALDPDELPARLEELARDIEELEEELNELAQEVGA 928
Query: 174 SKVELIKSHKNNVSTDTVLALL----QTAASEIEEESEKVPEEFLNGTIDVDKFLETFTP 229
+K EL + + A L ++ +++ + +E ++LE
Sbjct: 929 AKQEL-----ARMDGGSTAAELEAERESLLAQLRDLAE--------------RYLELALA 969
Query: 230 KRILM-HLRRIKADKMAEMLTK 250
R+L + R + + +L +
Sbjct: 970 SRLLRKAIERYREQRQPPVLNR 991
>gnl|CDD|220785 pfam10498, IFT57, Intra-flagellar transport protein 57. Eukaryotic
cilia and flagella are specialised organelles found at
the periphery of cells of diverse organisms.
Intra-flagellar transport (IFT) is required for the
assembly and maintenance of eukaryotic cilia and
flagella, and consists of the bidirectional movement of
large protein particles between the base and the distal
tip of the organelle. IFT particles contain multiple
copies of two distinct protein complexes, A and B, which
contain at least 6 and 11 protein subunits. IFT57 is
part of complex B but is not, however, required for the
core subunits to stay associated. This protein is known
as Huntington-interacting protein-1 in humans.
Length = 355
Score = 30.4 bits (69), Expect = 1.2
Identities = 38/185 (20%), Positives = 67/185 (36%), Gaps = 32/185 (17%)
Query: 1 MENLESLLEHLDISELKELVNDEETFN--NFTKEATATLTTESNEQKEMLIASNKSLAEY 58
EN++ + + E++E V EE + + T Q + ++ S AE+
Sbjct: 133 EENVDEDDAEIILEEVEEEVEIEEVDDDEGTQETKYKRGDTSLTPQAKDVLESLIDAAEW 192
Query: 59 NLSQEEAL--------LEKKSQLLDLNEQLTQLSKSVESKVELIKSHKNNVSTDTVLALL 110
L E L + K L EQ+ QL K++ + K + +S D AL
Sbjct: 193 KLEVERVLPQLKVTIKTDAKDWRSHL-EQMHQLKKAISKSLPETKQYLKKLSQDLSKAL- 250
Query: 111 QTAASEIEEESETTESNEQKEMLIASNKSLAEYNLSQEEALLEKKSQLLDLNEQLTQLSK 170
E E +N+ ++++ EY E + L + E+ Q S+
Sbjct: 251 -----EKISSREKHLNNQLEQLVQ-------EYR--------EARRTLSQVQEKYNQASQ 290
Query: 171 SVESK 175
V
Sbjct: 291 GVSEL 295
>gnl|CDD|184064 PRK13461, PRK13461, F0F1 ATP synthase subunit B; Provisional.
Length = 159
Score = 29.6 bits (67), Expect = 1.3
Identities = 25/95 (26%), Positives = 41/95 (43%), Gaps = 10/95 (10%)
Query: 134 IASNKSLAEYNLSQEEALLEKKSQLLDLNEQLTQLSKSVESK--VELIKSHKNNVSTDTV 191
I S +S + + + + +K +L NE+ + +K E K VE KS NV + V
Sbjct: 34 IDSRQSEIDNKIEKADEDQKKARELKLKNERELKNAKE-EGKKIVEEYKSKAENVYEEIV 92
Query: 192 -------LALLQTAASEIEEESEKVPEEFLNGTID 219
+++ A E + E EK E N +D
Sbjct: 93 KEAHEEADLIIERAKLEAQREKEKAEYEIKNQAVD 127
>gnl|CDD|188306 TIGR03319, RNase_Y, ribonuclease Y. Members of this family are
RNase Y, an endoribonuclease. The member from Bacillus
subtilis, YmdA, has been shown to be involved in
turnover of yitJ riboswitch [Transcription, Degradation
of RNA].
Length = 514
Score = 30.3 bits (69), Expect = 1.5
Identities = 21/99 (21%), Positives = 48/99 (48%), Gaps = 2/99 (2%)
Query: 114 ASEIEEESETTESNEQKEMLIASNKSLAEYNLSQEEALLEKKSQLLDLNEQLTQLSKSVE 173
A I EE++ +KE L+ + + + + E L E++++L L +L Q ++++
Sbjct: 34 AKRIIEEAKKEAETLKKEALLEAKEEVHKLRAELERELKERRNELQRLERRLLQREETLD 93
Query: 174 SKVELIKSHKNNVSTDTVLALLQTAASEIEEESEKVPEE 212
K+E + + N+ + L ++E+ E++ E
Sbjct: 94 RKMESLDKKEENL--EKKEKELSNKEKNLDEKEEELEEL 130
Score = 29.1 bits (66), Expect = 3.8
Identities = 38/188 (20%), Positives = 75/188 (39%), Gaps = 40/188 (21%)
Query: 44 QKEMLIASNKSLAEYNLSQEEALLEKKSQLLDLNEQLTQLSKSVESKVELIKSHKNNVST 103
+K++ A + +++EA KK LL+ E++ +L +E ++ K +N
Sbjct: 24 EKKLGSAEELAKRIIEEAKKEAETLKKEALLEAKEEVHKLRAELEREL---KERRNE--- 77
Query: 104 DTVLALLQTAASEIEEESET----TESNEQKEMLIASNKSLAEYNLSQEEALLEKKSQLL 159
LQ + + ET ES ++KE E +E+ L K+ L
Sbjct: 78 ------LQRLERRLLQREETLDRKMESLDKKE----------ENLEKKEKELSNKEKNLD 121
Query: 160 DLNEQLTQLSKSVESKVE-------------LIKSHKNNVSTDTVLALLQTAASEIEEES 206
+ E+L +L ++E L++ + + L++ E +EE+
Sbjct: 122 EKEEELEELIAEQREELERISGLTQEEAKEILLEEVEEEARHEAA-KLIKEIEEEAKEEA 180
Query: 207 EKVPEEFL 214
+K +E L
Sbjct: 181 DKKAKEIL 188
>gnl|CDD|150553 pfam09893, DUF2120, Uncharacterized protein conserved in archaea
(DUF2120). This domain, found in various hypothetical
archaeal proteins, has no known function.
Length = 146
Score = 29.4 bits (66), Expect = 1.5
Identities = 19/77 (24%), Positives = 32/77 (41%), Gaps = 12/77 (15%)
Query: 2 ENLESLLEHLDISELKELVNDEETFNNFTKEATATLTTESNEQKEMLIASNKSLAEYNLS 61
E LES+ E+L+I ++ +L E L E +E M+ N+ E +
Sbjct: 45 EKLESIKEYLNIEKVDKLS-----------EEGFELINEVDEILVMVRRINEVFTESEIY 93
Query: 62 QEEALLEK-KSQLLDLN 77
+E E+ K D+
Sbjct: 94 LDEFGFERLKESFEDMG 110
>gnl|CDD|176229 cd08268, MDR2, Medium chain dehydrogenases/reductase
(MDR)/zinc-dependent alcohol dehydrogenase-like family.
This group is a member of the medium chain
dehydrogenases/reductase (MDR)/zinc-dependent alcohol
dehydrogenase-like family, but lacks the zinc-binding
sites of the zinc-dependent alcohol dehydrogenases. The
medium chain dehydrogenases/reductase
(MDR)/zinc-dependent alcohol dehydrogenase-like family,
which contains the zinc-dependent alcohol dehydrogenase
(ADH-Zn) and related proteins, is a diverse group of
proteins related to the first identified member, class I
mammalian ADH. MDRs display a broad range of activities
and are distinguished from the smaller short chain
dehydrogenases (~ 250 amino acids vs. the ~ 350 amino
acids of the MDR). The MDR proteins have 2 domains: a
C-terminal NAD(P)-binding Rossmann fold domain of a
beta-alpha form and an N-terminal catalytic domain with
distant homology to GroES. The MDR group contains a
host of activities, including the founding alcohol
dehydrogenase (ADH), quinone reductase, sorbitol
dehydrogenase, formaldehyde dehydrogenase, butanediol
DH, ketose reductase, cinnamyl reductase, and numerous
others. The zinc-dependent alcohol dehydrogenases (ADHs)
catalyze the NAD(P)(H)-dependent interconversion of
alcohols to aldehydes or ketones. Active site zinc has
a catalytic role, while structural zinc aids in
stability. ADH-like proteins typically form dimers
(typically higher plants, mammals) or tetramers (yeast,
bacteria), and generally have 2 tightly bound zinc atoms
per subunit. The active site zinc is coordinated by a
histidine, two cysteines, and a water molecule. The
second zinc seems to play a structural role, affects
subunit interactions, and is typically coordinated by 4
cysteines.
Length = 328
Score = 29.9 bits (68), Expect = 1.5
Identities = 7/19 (36%), Positives = 8/19 (42%)
Query: 274 GMYPPVPVPPMGPGYPVSG 292
G Y P P GY +G
Sbjct: 49 GAYIEPPPLPARLGYEAAG 67
>gnl|CDD|197874 smart00787, Spc7, Spc7 kinetochore protein. This domain is found
in cell division proteins which are required for
kinetochore-spindle association.
Length = 312
Score = 30.0 bits (68), Expect = 1.7
Identities = 22/122 (18%), Positives = 47/122 (38%), Gaps = 29/122 (23%)
Query: 60 LSQEEALLEKKSQLL-DLNEQLTQLSKSVESKVELIKSHKNNVSTDTVLALLQTAASEIE 118
L ++ LL K+ +LL + +L ++E ++ +K ++ +
Sbjct: 156 LKEDYKLLMKELELLNSIKPKLRDRKDALEEELRQLKQLEDEL----------------- 198
Query: 119 EESETTESNEQKEMLIASNKSLAEYNLSQEEALLEKKSQLLDLNEQLTQLSKSVESKVEL 178
E+ + TE + KE L + ++ K +L +L E+L +L +E
Sbjct: 199 EDCDPTELDRAKEKL-----------KKLLQEIMIKVKKLEELEEELQELESKIEDLTNK 247
Query: 179 IK 180
Sbjct: 248 KS 249
Score = 28.1 bits (63), Expect = 6.0
Identities = 21/108 (19%), Positives = 37/108 (34%), Gaps = 13/108 (12%)
Query: 1 MENL-ESLLEHLDI-SELKELVNDEETFNNFTKEATATLTTESNEQKEMLIASNKSLAEY 58
+E L E L E+L+ E +L+ E N K E+ L L +
Sbjct: 142 LEGLKEGLDENLEGLKEDYKLLMKELELLNSIKPKLRDRKDALEEELRQLKQLEDELEDC 201
Query: 59 N-----------LSQEEALLEKKSQLLDLNEQLTQLSKSVESKVELIK 95
+ + ++ K +L +L E+L +L +E
Sbjct: 202 DPTELDRAKEKLKKLLQEIMIKVKKLEELEEELQELESKIEDLTNKKS 249
>gnl|CDD|226400 COG3883, COG3883, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 265
Score = 29.7 bits (67), Expect = 2.0
Identities = 20/84 (23%), Positives = 36/84 (42%), Gaps = 4/84 (4%)
Query: 48 LIASNKSLAEYNLSQEEALLEKKSQLLDLNEQLTQLSKSVESKVELIKSHKNNVSTDTVL 107
++ ++K + E +++L EK++ L D E L L +E+++ + S K
Sbjct: 142 IVDADKKILEQQKEDKKSLEEKQAALEDKLETLVALQNELETQLNSLNSQKAE----KNA 197
Query: 108 ALLQTAASEIEEESETTESNEQKE 131
+ AA E E EQK
Sbjct: 198 LIAALAAKEASALGEKAALEEQKA 221
>gnl|CDD|185013 PRK15053, dpiB, sensor histidine kinase DpiB; Provisional.
Length = 545
Score = 29.8 bits (67), Expect = 2.1
Identities = 22/64 (34%), Positives = 33/64 (51%), Gaps = 2/64 (3%)
Query: 70 KSQLLDLNEQLTQLSKSVESKVELIKSHKNNVSTDTVLALLQTAASEIEEESETTESNEQ 129
K ++ LN QLTQ+ + VES L H N +S T+ LLQ + E ES Q
Sbjct: 322 KDEISTLNAQLTQIKQYVESLRTLRHEHLNWMS--TLNGLLQMKEYDRVLEMVQGESQAQ 379
Query: 130 KEML 133
++++
Sbjct: 380 QQLI 383
Score = 28.6 bits (64), Expect = 4.4
Identities = 19/56 (33%), Positives = 27/56 (48%), Gaps = 10/56 (17%)
Query: 155 KSQLLDLNEQLTQLSKSVESKVELIKSHKNNVST----------DTVLALLQTAAS 200
K ++ LN QLTQ+ + VES L H N +ST D VL ++Q +
Sbjct: 322 KDEISTLNAQLTQIKQYVESLRTLRHEHLNWMSTLNGLLQMKEYDRVLEMVQGESQ 377
>gnl|CDD|130673 TIGR01612, 235kDa-fam, reticulocyte binding/rhoptry protein. This
model represents a group of paralogous families in
plasmodium species alternately annotated as reticulocyte
binding protein, 235-kDa family protein and rhoptry
protein. Rhoptry protein is localized on the cell surface
and is extremely large (although apparently lacking in
repeat structure) and is important for the process of
invasion of the RBCs by the parasite. These proteins are
found in P. falciparum, P. vivax and P. yoelii.
Length = 2757
Score = 30.0 bits (67), Expect = 2.1
Identities = 56/256 (21%), Positives = 112/256 (43%), Gaps = 18/256 (7%)
Query: 1 MENLESLLEHLDISELKELVNDEETFNNFTKEATATLTTESNEQKEMLIASNKSLAEYNL 60
+EN E+ L IS++K+ +ND ++ ++ + +S + + N + + L
Sbjct: 1602 LENFENKF--LKISDIKKKINDCLKETESIEKKISSFSIDSQDTELKENGDNLNSLQEFL 1659
Query: 61 SQEEALLEKKSQLLDLNEQLTQLSKSVESKVELIKSHKNNVSTDTVLALLQTAASEIEEE 120
E+L ++K + D ++L +L +E + HK N + + + A + EE
Sbjct: 1660 ---ESLKDQKKNIEDKKKELDELDSEIEKIEIDVDQHKKNYEIGIIEKIKEIAIANKEEI 1716
Query: 121 SETTESNEQK-EMLIASNKSLAEYNLSQEEALLEKKSQLLDLNEQLTQLSKSVESKVELI 179
E E E LI+S + + E L E +++ D+ E+ +L + +E +
Sbjct: 1717 ESIKELIEPTIENLISSFNTNDLEGIDPNEKLEEYNTEIGDIYEEFIELYNIIAGCLETV 1776
Query: 180 KSHKNNVSTDTVLALLQTAASEIEE--ESEKVPEEFLNGTIDVDKFLETFTPKRILMHLR 237
K ++ D + A +E + E EK + +L+ I+ +F RI+ H +
Sbjct: 1777 S--KEPITYDEIKNTRINAQNEFLKIIEIEKKSKSYLD-DIEAKEF------DRIINHFK 1827
Query: 238 RIKADKMAEMLTKRNS 253
+ K D + + TK S
Sbjct: 1828 K-KLDHVNDKFTKEYS 1842
>gnl|CDD|181958 PRK09564, PRK09564, coenzyme A disulfide reductase; Reviewed.
Length = 444
Score = 29.6 bits (67), Expect = 2.2
Identities = 24/79 (30%), Positives = 35/79 (44%), Gaps = 5/79 (6%)
Query: 149 EALLEKKSQLLDLNEQLTQLSKSVESKVELIKSHKNNVSTDTV-LALLQTAASEIEEESE 207
E L + L LNE + L E KVE + + K D V +A +E E++
Sbjct: 198 EEELRENGVELHLNEFVKSLIG--EDKVEGVVTDKGEYEADVVIVATGVKPNTEFLEDTG 255
Query: 208 KVPEEFLNGTIDVDKFLET 226
+ NG I VD++ ET
Sbjct: 256 L--KTLKNGAIIVDEYGET 272
>gnl|CDD|220392 pfam09770, PAT1, Topoisomerase II-associated protein PAT1. Members
of this family are necessary for accurate chromosome
transmission during cell division.
Length = 804
Score = 29.7 bits (67), Expect = 2.6
Identities = 11/49 (22%), Positives = 13/49 (26%), Gaps = 2/49 (4%)
Query: 270 SSFGGMYPPVPVPPMGPGYPVSGGGMPLPHIQMTPYPQLPQMPTPSYPF 318
YP P P +P P P PQ+P P
Sbjct: 197 PEQPPGYPQPPQGH--PEQVQPQQFLPAPSQAPAQPPLPPQLPQQPPPL 243
Score = 29.4 bits (66), Expect = 3.6
Identities = 17/44 (38%), Positives = 18/44 (40%)
Query: 274 GMYPPVPVPPMGPGYPVSGGGMPLPHIQMTPYPQLPQMPTPSYP 317
M PP P PP P P P Q TP+P LPQ P
Sbjct: 254 QMPPPPPQPPQQQQQPPQPQAQPPPQNQPTPHPGLPQGQNAPLP 297
Score = 29.0 bits (65), Expect = 4.5
Identities = 10/43 (23%), Positives = 11/43 (25%), Gaps = 1/43 (2%)
Query: 276 YPPVPVPPMGPGYP-VSGGGMPLPHIQMTPYPQLPQMPTPSYP 317
+P P PGYP G Q P P
Sbjct: 191 FPQQGPPEQPPGYPQPPQGHPEQVQPQQFLPAPSQAPAQPPLP 233
>gnl|CDD|220098 pfam09057, Smac_DIABLO, Second Mitochondria-derived Activator of
Caspases. Second Mitochondria-derived Activator of
Caspases promotes apoptosis by activating caspases in
the cytochrome c/Apaf-1/caspase-9 pathway, and by
opposing the inhibitory activity of inhibitor of
apoptosis proteins (XIAP-BIR3). The protein assumes an
elongated three-helix bundle structure, and forms a
dimer in solution.
Length = 234
Score = 29.1 bits (65), Expect = 2.7
Identities = 37/153 (24%), Positives = 68/153 (44%), Gaps = 19/153 (12%)
Query: 74 LDLNEQLTQLSKSVESKVELIKSHK------NNVSTDTVLALLQTAASEI---EEESETT 124
L L + LT+ +K+V + + L K + N V D + ++ E+ EE
Sbjct: 86 LALVDALTEYTKAVYTLISLQKQYTASIGKMNPVEEDAIWQVIIGQRVEVSDRLEECLKF 145
Query: 125 ESNEQKEMLIASNKSLAEYNLSQEEALLEKKS--QLLDLN-EQLTQLSKSVESKVELIKS 181
ESN + ++ + A YN ++A + ++ Q+ E++ QLSK E K+ K
Sbjct: 146 ESNWMTAVNLSEMAAEAAYNSGADQASVAARNHLQVAQSQVEEVRQLSKEAEKKLAESK- 204
Query: 182 HKNNVSTDTVLALLQTAASEIEEESEKVPEEFL 214
+ + + + A+S E E +PE +L
Sbjct: 205 ------AEEIQRMAEYASSIDLSELEDIPEAYL 231
>gnl|CDD|181442 PRK08476, PRK08476, F0F1 ATP synthase subunit B'; Validated.
Length = 141
Score = 28.1 bits (63), Expect = 3.5
Identities = 28/103 (27%), Positives = 47/103 (45%), Gaps = 15/103 (14%)
Query: 94 IKSHKNNVSTDTVLALLQTAASEIEEESET------TESNEQKEMLIASNKSLAEYNLSQ 147
IK+ V T++ + SEIE E ET E+N+ ++ IA K AE +
Sbjct: 43 IKNDLEKVKTNS------SDVSEIEHEIETILKNAREEANKIRQKAIAKAKEEAEKKIEA 96
Query: 148 EEALLEKK--SQLLDLNEQLTQLSKSVESKVELIK-SHKNNVS 187
++A LE K + L Q +L + + S++ K + +S
Sbjct: 97 KKAELESKYEAFAKQLANQKQELKEQLLSQMPEFKEALNAKLS 139
>gnl|CDD|219420 pfam07466, DUF1517, Protein of unknown function (DUF1517). This
family consists of several hypothetical glycine rich
plant and bacterial proteins of around 300 residues in
length. The function of this family is unknown.
Length = 280
Score = 28.8 bits (65), Expect = 3.7
Identities = 10/45 (22%), Positives = 16/45 (35%), Gaps = 3/45 (6%)
Query: 253 SFGSPTHNGVGGHNGGSSSFGGMYPPVP---VPPMGPGYPVSGGG 294
SF +P+ + + G P P + P + GGG
Sbjct: 12 SFRAPSRSSSSPRSSSPGGGGYYGSPGGGFGFPFLIPFFGFGGGG 56
>gnl|CDD|191194 pfam05111, Amelin, Ameloblastin precursor (Amelin). This family
consists of several mammalian Ameloblastin precursor
(Amelin) proteins. Matrix proteins of tooth enamel
consist mainly of amelogenin but also of non-amelogenin
proteins, which, although their volumetric percentage is
low, have an important role in enamel mineralisation.
One of the non-amelogenin proteins is ameloblastin, also
known as amelin and sheathlin. Ameloblastin (AMBN) is
one of the enamel sheath proteins which is though to
have a role in determining the prismatic structure of
growing enamel crystals.
Length = 410
Score = 28.8 bits (64), Expect = 3.8
Identities = 15/40 (37%), Positives = 18/40 (45%), Gaps = 6/40 (15%)
Query: 278 PVPVPPMGPGY-PVSGGGMPLPHIQ-----MTPYPQLPQM 311
P PPM PG P+ +P H Q P P+LP M
Sbjct: 147 AGPQPPMHPGQLPLQEAELPEVHEQVAPSEKPPTPELPGM 186
>gnl|CDD|225871 COG3334, COG3334, Uncharacterized conserved protein [Function
unknown].
Length = 192
Score = 28.2 bits (63), Expect = 3.9
Identities = 19/65 (29%), Positives = 33/65 (50%), Gaps = 1/65 (1%)
Query: 106 VLALLQTAASEIEEESETTESNEQKEMLIASNKSLAEYNLSQEEALLEKKSQLLDLNEQL 165
V A + AA+E+ E+ +S +K + A+ + ++ LLEK L ++NE+L
Sbjct: 35 VGAEAEDAAAELAEKKAAAQSEIEKFCA-NIADAAADQLYALQKELLEKLKDLAEVNERL 93
Query: 166 TQLSK 170
L K
Sbjct: 94 KALEK 98
>gnl|CDD|217933 pfam04156, IncA, IncA protein. Chlamydia trachomatis is an
obligate intracellular bacterium that develops within a
parasitophorous vacuole termed an inclusion. The
inclusion is non-fusogenic with lysosomes but intercepts
lipids from a host cell exocytic pathway. Initiation of
chlamydial development is concurrent with modification
of the inclusion membrane by a set of C.
trachomatis-encoded proteins collectively designated
Incs. One of these Incs, IncA, is functionally
associated with the homotypic fusion of inclusions. This
family probably includes members of the wider Inc family
rather than just IncA.
Length = 186
Score = 28.2 bits (63), Expect = 4.0
Identities = 28/121 (23%), Positives = 50/121 (41%), Gaps = 11/121 (9%)
Query: 62 QEEALLEKKSQLLDLNEQLTQLSKSVESKVELIKSHKNNVSTDTVLALLQTAASEIEEES 121
+ L E K QL +L E+L L + + ++ K L LL+ +EE
Sbjct: 77 LQGELSELKQQLSELQEELEDLEERIAELESELEDLKE------DLQLLRELLKSLEERL 130
Query: 122 ETTESNEQKEMLIASNKSLAEYNLSQEEALLEKKSQLLDLNEQLTQLSKSVESKVELIKS 181
E+ E + + K L E E + E + +L L E L +L ++++ L++
Sbjct: 131 ESLEESIK-----ELAKELRELRQDLREEVEELREELERLQENLQRLQEAIQELQSLLEQ 185
Query: 182 H 182
Sbjct: 186 L 186
>gnl|CDD|225803 COG3264, COG3264, Small-conductance mechanosensitive channel [Cell
envelope biogenesis, outer membrane].
Length = 835
Score = 28.9 bits (65), Expect = 4.4
Identities = 30/143 (20%), Positives = 60/143 (41%), Gaps = 11/143 (7%)
Query: 46 EMLIASNKSLAEYNLSQEEALLEKKSQLLDLNEQLTQLSKSVESKVELIKSHKNNVSTDT 105
E + + + AE + E E Q L +N+QL+Q ++ + S ++
Sbjct: 36 EAVNSKRQEEAEPAAEEAELQAELIQQELAINDQLSQALNQQTERLNALAS--DDRQLAN 93
Query: 106 VLALLQTAASEIEEES-----ETTESN---EQKEMLIASNKSLAEYNLSQE-EALLEKKS 156
+L L ++ I E+ S +Q L + + ++ ++QE +AL +K+
Sbjct: 94 LLLQLLQSSRTIREQIAVLRGSLLLSRILLQQLGPLPEAGQPQEQFEVTQERDALQAEKA 153
Query: 157 QLLDLNEQLTQLSKSVESKVELI 179
+ L Q QL+ V ++ I
Sbjct: 154 YINALEGQAEQLTAEVRDILDQI 176
>gnl|CDD|227731 COG5444, COG5444, Uncharacterized conserved protein [Function
unknown].
Length = 565
Score = 28.6 bits (64), Expect = 4.8
Identities = 28/209 (13%), Positives = 65/209 (31%), Gaps = 20/209 (9%)
Query: 4 LESLLEHLDISELKELVNDEETFNNFTKEATATLTTESNEQKEM--LIASNKSLAEYNLS 61
E+ L+H EL N + + +E + ++ + L + + +
Sbjct: 97 EEAFLKH-------ELPNGYDRYEEIMEEQKKAIKDILSDVSHILDLGKLDTEDFKDEVD 149
Query: 62 QEEALLEKK-SQLLDLNEQLTQLSKSVESKVELIKSHKNNVSTDTVLALLQTAASEIEEE 120
+ +L L+++ L +VESK++ +K+ + T+ I
Sbjct: 150 SARKHAKDTLEKLYKLDQEGMTLMAAVESKMQELKAIIRQLEEWTIKGGATKKGVPIHYV 209
Query: 121 SETTESNEQKEMLIASNKSLAEYNLSQEEALLEKKSQLLDLNEQLTQLSKSVESKVELIK 180
++ + Y + E E+ DL++ L +K+ +
Sbjct: 210 AKAFAEVTIHKKAAEVALQSETYLDIKTELAKERPDM-RDLDKPLESANKTGYEGLAG-- 266
Query: 181 SHKNNVSTDTVLALLQTAASEIEEESEKV 209
D V L ++ +
Sbjct: 267 -------EDIVPFFLAEETGQLAYSRAGI 288
>gnl|CDD|235520 PRK05589, PRK05589, peptide chain release factor 2; Provisional.
Length = 325
Score = 28.2 bits (63), Expect = 5.3
Identities = 19/102 (18%), Positives = 47/102 (46%), Gaps = 18/102 (17%)
Query: 163 EQLTQLSKSVESKVELIKSHKNNVSTDTVLALLQTAASEIEEESEKVPEEFLNGTIDVDK 222
+++T K ++ K++ +N + VL + + EE +++ +E ++ ++ +
Sbjct: 14 QEITSEEKYLKDKLDKYNHLRNRIEDIEVLCEM------MSEEDDEMKKEIISEVKNIKE 67
Query: 223 FLETFTPKRILMHLRRIKADKMAEMLTKRNSFGSPTHNGVGG 264
++ F + +L + D+ +LT H+GVGG
Sbjct: 68 EIDRFKIETLLSG----EYDRNNAILT--------LHSGVGG 97
>gnl|CDD|218681 pfam05667, DUF812, Protein of unknown function (DUF812). This
family consists of several eukaryotic proteins of
unknown function.
Length = 536
Score = 28.6 bits (64), Expect = 5.3
Identities = 32/158 (20%), Positives = 62/158 (39%), Gaps = 18/158 (11%)
Query: 53 KSLAEYNLSQEEALLEKKSQLLDLNEQ-LTQLSKSVESKVELIKSHKNNVSTDTVLALLQ 111
+ L +Y + + L +K ++ L Q T S S + +L+ + +
Sbjct: 181 QGLEDYRKRKRQRLDQKAAEYLRQAAQAGTTGSSSADDLADLLSKFRLDSWDKGSRF--- 237
Query: 112 TAASEIEEESETTESNEQKEMLIASNKSLAEYNLSQEEALLEKKSQLLDLNEQLTQLSKS 171
T ++ A+ AE ++E+ E++++L L EQ+ +L S
Sbjct: 238 -----------TRTEKVEQAATAAAEVPPAE-MDTEEDRTKEREAELEALQEQIDELESS 285
Query: 172 VESKVELIKSHKNNVSTDTVLALLQTAASEIEEESEKV 209
+E + IK+ + + V L T E EE E+
Sbjct: 286 IEEVLSEIKALASKIK--QVNEELTTVRQENEELEEEY 321
>gnl|CDD|178867 PRK00106, PRK00106, hypothetical protein; Provisional.
Length = 535
Score = 28.3 bits (63), Expect = 5.5
Identities = 30/113 (26%), Positives = 51/113 (45%), Gaps = 17/113 (15%)
Query: 116 EIEEE--SETTESNEQKEMLIASNKSL--AEYNLSQEEALLEKKSQLL--------DLNE 163
EIE+E SE E + + L SL + NLS +E LE K Q L + E
Sbjct: 87 EIEQEFKSERQELKQIESRLTERATSLDRKDENLSSKEKTLESKEQSLTDKSKHIDEREE 146
Query: 164 QLTQLSKSVESKVELIKSHKNNVSTDTVLA-----LLQTAASEIEEESEKVPE 211
Q+ +L + ++++E + + + + +LA L A+ I E +V +
Sbjct: 147 QVEKLEEQKKAELERVAALSQAEAREIILAETENKLTHEIATRIREAEREVKD 199
>gnl|CDD|227608 COG5283, COG5283, Phage-related tail protein [Function unknown].
Length = 1213
Score = 28.7 bits (64), Expect = 5.7
Identities = 33/189 (17%), Positives = 61/189 (32%), Gaps = 18/189 (9%)
Query: 11 LDISELKELVNDEETFNNFTKEA---TATLTTESNEQKEMLIASNKSLAEY--NLSQE-- 63
+I+ LK + D F ++ T + S + E L + + + +L QE
Sbjct: 22 KNINVLKSSIKDSTQFWKMLEKQQKLTKDGLSASKGKYEGLSEAMEKQKKAYEDLKQEVK 81
Query: 64 ---EALLEKKSQLLDLNEQLTQLSKSVESKVELIKSHKNNVSTDTVLALLQTAASEIEEE 120
A K + N Q TQ E+K+ + L L Q ++
Sbjct: 82 EVNRATQASKKAYQEYNAQYTQ----AENKLRSLSGQFG--VASEQLMLQQKEIQRLQYA 135
Query: 121 SETTE--SNEQKEMLIASNKSLAEYNLSQEEALLEKKSQLLDLNEQLTQLSKSVESKVEL 178
T Q +L + + Q LN+QL + K ++ +
Sbjct: 136 ISTLNKSMAAQARLLEQTGNKFGTADAKVVGLRESFGRQTEALNKQLERTKKVADALTYV 195
Query: 179 IKSHKNNVS 187
+ + +S
Sbjct: 196 LDEAQQKLS 204
>gnl|CDD|220042 pfam08852, DUF1822, Protein of unknown function (DUF1822). This
family of proteins are functionally uncharacterized.
Length = 369
Score = 28.2 bits (63), Expect = 5.9
Identities = 23/131 (17%), Positives = 42/131 (32%), Gaps = 11/131 (8%)
Query: 1 MENLESLLEHLDISELKELVNDEETFNNFTKEATATLTTESNEQKEMLIASNKSLAEYNL 60
+ +LL+ E +E T+ A + L T Q E L+ +
Sbjct: 150 LIPDLNLLDAARQLEPEEP----------TRSAISPLPTLPLTQAENLLTRLGNPFISPW 199
Query: 61 SQEEALLEKKSQLLDLNEQLTQLSKSVESKVELIKSHKNNVSTDTVLALLQTAASEIEEE 120
EALL L E+ L + S + ++S + ++T AA +
Sbjct: 200 ELWEALLGHGGWRQQLYERRQGLPEQ-WSVGQWLQSGVSELATTLGWETRWLAAEILGAR 258
Query: 121 SETTESNEQKE 131
+ +
Sbjct: 259 NANHPEESIQR 269
>gnl|CDD|197389 cd10154, NreA-like_DUF156, Alcaligenes xylosoxidans NreA and
related domains; this domain family was previously known
as part of DUF156. This domain family includes
Alcaligenes xylosoxidans NreA, Psudomonas putida MreA,
and related domains. The gene encoding Alcaligenes
xylosoxidans NreA is part of the nre nickel resistance
locus located on the pTOM9 plasmid from this bacteria;
it confers low-level nickel resistance on both Ralstonia
and Escherichia coli strains. The Pseudomonas putida
MreA gene is found in association with a gene encoding
mrdH, a heavy metal efflux transporter of broad
specificity. MreA may have a role in cadmium and nickel
resistance. This family is part of a larger superfamily
that contains various transcriptional regulators that
respond to different stressors such as Cu(I), Ni(I),
sulfite, and formaldehyde, and includes CsoRs
(copper-sensitive operon repressors). CsoRs form
homotetramers (dimer of dimers). In Mycobacterium
tuberculosis CsoR, within each dimer, two Cys residues
on opposite subunits, along with a His residue, bind the
Cu(I) ion (forming a triagonal S2N coordination complex,
C-H-C). These residues are conserved in the majority of
members of this superfamily, including members of this
family; however, a conserved Tyr and a Glu residue that
facilitates allosteric regulation of DNA binding for
CsoRs are poorly conserved.
Length = 86
Score = 26.6 bits (59), Expect = 6.0
Identities = 13/52 (25%), Positives = 24/52 (46%), Gaps = 1/52 (1%)
Query: 74 LDLNEQLTQLSKSVES-KVELIKSHKNNVSTDTVLALLQTAASEIEEESETT 124
+D+ +QL + K++ K LI H ++ + V L + S + E T
Sbjct: 32 VDIAQQLHAVEKAITQAKRTLIHDHIDHCLEEAVGDLPRDERSVLAEFKAIT 83
>gnl|CDD|222160 pfam13476, AAA_23, AAA domain.
Length = 204
Score = 27.9 bits (62), Expect = 6.1
Identities = 26/169 (15%), Positives = 61/169 (36%), Gaps = 19/169 (11%)
Query: 12 DISELKELVNDEETFNNFTKEATATLTTESNEQKEMLIASNKSLAEYNLSQEEALLEKKS 71
+K + E+ T + K LI ++ L + + + + +
Sbjct: 55 GRGIVKGDIEIEKDEGKKKTYVEITFENNKGKLKLRLIEESRELTKKKGKKVKKSILEIV 114
Query: 72 QLLDLNEQLTQLSKSVESKVELIKSHKNNVSTDTVLALLQTAASEIEEESETTESNEQKE 131
++ +L E + +L KS + + L+ L E + + +E
Sbjct: 115 EIDELQEFIDELLKSDKEILPLL-------------LYLGQERLEELKFKRKEKKERLEE 161
Query: 132 MLIASNKSLAEYNLSQEEALLEKKSQLLDLNEQLTQLSKSVESKVELIK 180
+ + L E+ LLEK + + ++L +L + +E +E ++
Sbjct: 162 LEKELEE------LEDEKDLLEKLLEEKEKKKELEELKEELEELLEELE 204
>gnl|CDD|221195 pfam11737, DUF3300, Protein of unknown function (DUF3300). This
hypothetical bacterial gene product has a long
hydrophobic segment and is thus likely to be a membrane
protein.
Length = 230
Score = 28.0 bits (63), Expect = 6.5
Identities = 8/20 (40%), Positives = 10/20 (50%)
Query: 276 YPPVPVPPMGPGYPVSGGGM 295
YPP PP G + GG+
Sbjct: 160 YPPYYWPPPPYGAAAAAGGI 179
>gnl|CDD|233758 TIGR02169, SMC_prok_A, chromosome segregation protein SMC,
primarily archaeal type. SMC (structural maintenance of
chromosomes) proteins bind DNA and act in organizing and
segregating chromosomes for partition. SMC proteins are
found in bacteria, archaea, and eukaryotes. It is found
in a single copy and is homodimeric in prokaryotes, but
six paralogs (excluded from this family) are found in
eukarotes, where SMC proteins are heterodimeric. This
family represents the SMC protein of archaea and a few
bacteria (Aquifex, Synechocystis, etc); the SMC of other
bacteria is described by TIGR02168. The N- and
C-terminal domains of this protein are well conserved,
but the central hinge region is skewed in composition
and highly divergent [Cellular processes, Cell division,
DNA metabolism, Chromosome-associated proteins].
Length = 1164
Score = 28.5 bits (64), Expect = 6.6
Identities = 40/211 (18%), Positives = 81/211 (38%), Gaps = 20/211 (9%)
Query: 14 SELKELVNDEETFNNFTKEATATLTTESNEQKEMLIASNKSLAEYNLSQEEALLEKKSQL 73
E+++L +EE +E L+ ++ E + + K L EE L + + L
Sbjct: 723 KEIEQLEQEEEKLKERLEELEEDLS-SLEQEIENVKSELKELEARIEELEEDLHKLEEAL 781
Query: 74 LDLN--------EQLTQLSKSVESKVELIKSHKN--NVSTDTVLALLQTAASEIEE-ESE 122
DL ++ +E +V I++ + + + EI+E + +
Sbjct: 782 NDLEARLSHSRIPEIQAELSKLEEEVSRIEARLREIEQKLNRLTLEKEYLEKEIQELQEQ 841
Query: 123 TTESNEQKEMLIASNKSLAEYNLSQEEALLEKKSQLLDLNEQLTQLSKSV---ESKVELI 179
+ EQ + + ++L EE L E ++ L DL +L L K E+++ +
Sbjct: 842 RIDLKEQIKSIEKEIENLNGKKEELEEELEELEAALRDLESRLGDLKKERDELEAQLREL 901
Query: 180 KSHKNNVSTD-----TVLALLQTAASEIEEE 205
+ + L+ L+ +EEE
Sbjct: 902 ERKIEELEAQIEKKRKRLSELKAKLEALEEE 932
>gnl|CDD|236798 PRK10929, PRK10929, putative mechanosensitive channel protein;
Provisional.
Length = 1109
Score = 28.5 bits (64), Expect = 6.8
Identities = 17/57 (29%), Positives = 25/57 (43%), Gaps = 6/57 (10%)
Query: 26 FNNFTKEATATLTTESNEQKEMLIASNKSLAEYNLSQEEALLEKKSQLLDLNEQLTQ 82
F + E L E +E + + N S L QE +L+ SQLL+ + Q Q
Sbjct: 77 FPKLSAELRQQLNNERDEPRS--VPPNMSTDA--LEQE--ILQVSSQLLEKSRQAQQ 127
>gnl|CDD|235638 PRK05896, PRK05896, DNA polymerase III subunits gamma and tau;
Validated.
Length = 605
Score = 28.3 bits (63), Expect = 6.8
Identities = 38/230 (16%), Positives = 85/230 (36%), Gaps = 21/230 (9%)
Query: 4 LESLLEHLDISELKELVNDEET----FNNFTKEATATL--------TTESNEQKEMLIAS 51
+E + ++ DI EL+ L+N+ E+ F F ++ L T N K++
Sbjct: 253 IELIQKN-DIEELRNLINELESKGINFEAFCRDLINLLIDLLVYQKTKNINLLKKLSKEQ 311
Query: 52 NKSLAEYN---LSQEEALLEKKSQLLDLNEQLTQLSKSV---ESKVELIKSHKNNVSTDT 105
K+L LS E + + L +L V E + I + N +
Sbjct: 312 LKTLNLEKQKLLSIEFNTNFLLNNFVSLINRLKASVNQVFEFEIYLYKIIN-ANPDKLEN 370
Query: 106 VLALLQTAASEIEEESETTESNEQKEMLIASNKSLAEYNLSQEEALLEKKSQLLDLNEQL 165
+ + + + ++ ++ SNK+ ++ + + K ++ N++
Sbjct: 371 KKIEISIKPEKKTINNSQIITTKKINIVEESNKNSVHFDTLYKTKIFYHKKKINQNNKEQ 430
Query: 166 TQLSKSVESKVELIKSHKNNVSTDTVLALLQTAASEIEEESEKVPEEFLN 215
+ + K E +K + D +L L+ A + + ++ + L
Sbjct: 431 DIKKEELLEK-EFVKKSEKIPKNDELLDNLELAKQKFFNKDIELSKNMLQ 479
>gnl|CDD|218813 pfam05929, Phage_GPO, Phage capsid scaffolding protein (GPO) serine
peptidase. This family consists of several
bacteriophage capsid scaffolding proteins (GPO) and some
related bacterial sequences. GPO is thought to function
in both the assembly of proheads and the cleavage of
GPN. The family is found to function as a serine
peptidase, with a conserved Asp, His and Ser catalytic
triad, as in subtilisin, and as represented in
MEROPS:S73. The family includes GpO from Enterobacteria
phage P2 which cleaves itself and then becomes the
scaffold protein upon which the bacteriophage prohead is
built - a mechanism quite common amongst phages.
Length = 277
Score = 27.9 bits (62), Expect = 7.1
Identities = 19/133 (14%), Positives = 49/133 (36%), Gaps = 13/133 (9%)
Query: 50 ASNKSLAEYNLSQEEALLEKKSQLLDLNEQLTQLSKSVESKVELIKSHKNNVSTDTVLAL 109
A + LA + + + L+ E + ++ +V+ + K S D A
Sbjct: 138 AKHNPLAARKQNPDNLFTVAEEVSLEFEETAETVPTNLFDRVKRLFKKKE-ASDDARFAD 196
Query: 110 LQTAASEIEEESETTESNEQKEMLIASNKSLAEYNLSQEEALLEKKSQLLDLNEQLTQLS 169
+ A + E + L A+ + L+E E+A+ + + L ++ +
Sbjct: 197 VGEAVEAVAEH--------VQGQLEATEQRLSE----AEKAVSDLEQALNSQGDERDKAF 244
Query: 170 KSVESKVELIKSH 182
++++ + +
Sbjct: 245 NALKASLSHTDDY 257
>gnl|CDD|219700 pfam08020, DUF1706, Protein of unknown function (DUF1706). This
family contains many hypothetical proteins from bacteria
and yeast.
Length = 166
Score = 27.6 bits (62), Expect = 7.1
Identities = 11/31 (35%), Positives = 15/31 (48%)
Query: 69 KKSQLLDLNEQLTQLSKSVESKVELIKSHKN 99
KK Q L E L +S E + LI++ N
Sbjct: 94 KKYQDTSLEELKALLDESHEEVLALIETLSN 124
Score = 27.6 bits (62), Expect = 7.1
Identities = 11/31 (35%), Positives = 15/31 (48%)
Query: 154 KKSQLLDLNEQLTQLSKSVESKVELIKSHKN 184
KK Q L E L +S E + LI++ N
Sbjct: 94 KKYQDTSLEELKALLDESHEEVLALIETLSN 124
>gnl|CDD|109889 pfam00851, Peptidase_C6, Helper component proteinase. This protein
is found in genome polyproteins of potyviruses.
Length = 453
Score = 28.0 bits (63), Expect = 7.6
Identities = 27/111 (24%), Positives = 42/111 (37%), Gaps = 20/111 (18%)
Query: 59 NLSQEEALLEKKSQLLDLNEQLTQLSKS------VESKVELIKSHKNNVSTDTVLALLQT 112
NLS++E K+ L QL +L V +E +K N + +
Sbjct: 59 NLSKDEI---KERLRTRLMRQLEELGSEHPRFKHVRQVLERLKQATNVTNMNL------E 109
Query: 113 AASEIEEESETTESNEQKEM--LIASNKSLAEYNLSQEEALLEKKSQLLDL 161
A SEI + + NK L + NL+ ++ L E LL+L
Sbjct: 110 AFSEITK---LIGGRTDAPFTHINEINKILLKGNLATQDELEEASKHLLEL 157
>gnl|CDD|237942 PRK15317, PRK15317, alkyl hydroperoxide reductase subunit F;
Provisional.
Length = 517
Score = 27.8 bits (63), Expect = 7.7
Identities = 14/50 (28%), Positives = 26/50 (52%), Gaps = 4/50 (8%)
Query: 160 DLNEQLTQLSKSVESKVELIKSHKNNVSTDTVLALLQTAASEIEEESEKV 209
+L QL Q + +E +EL+ S ++ + + LL+ EI S+K+
Sbjct: 5 NLKTQLKQYLELLERPIELVASLDDSEKSAELKELLE----EIASLSDKI 50
>gnl|CDD|223021 PHA03247, PHA03247, large tegument protein UL36; Provisional.
Length = 3151
Score = 28.4 bits (63), Expect = 7.7
Identities = 13/41 (31%), Positives = 13/41 (31%)
Query: 277 PPVPVPPMGPGYPVSGGGMPLPHIQMTPYPQLPQMPTPSYP 317
P P P P P P P P P P P P P
Sbjct: 2902 PDQPERPPQPQAPPPPQPQPQPPPPPQPQPPPPPPPRPQPP 2942
>gnl|CDD|219339 pfam07223, DUF1421, Protein of unknown function (DUF1421). This
family represents a conserved region approximately 350
residues long within a number of plant proteins of
unknown function.
Length = 357
Score = 27.6 bits (61), Expect = 8.5
Identities = 12/44 (27%), Positives = 13/44 (29%)
Query: 277 PPVPVPPMGPGYPVSGGGMPLPHIQMTPYPQLPQMPTPSYPFYK 320
P P P P YP P P Q P P Y+
Sbjct: 111 PQQPTPQQEPYYPPPSQPQPPPAQQPQAQQPQPPPQVPQQQQYQ 154
>gnl|CDD|227547 COG5222, COG5222, Uncharacterized conserved protein, contains RING
Zn-finger [General function prediction only].
Length = 427
Score = 27.8 bits (61), Expect = 8.6
Identities = 24/107 (22%), Positives = 38/107 (35%), Gaps = 13/107 (12%)
Query: 212 EFLNGTIDVDKFLETFTPKRILMHLRRIKADKMAEMLTKRNSFGSPTHNGVGGHNGGSSS 271
+ L ID +E K+ +D ++++ P + V +
Sbjct: 324 DGLTPDIDKKLEVEKALKKQRKKVG---TSDDNNTPMSEKRKREDPNSSAVFSKATAEPA 380
Query: 272 F-GGMYPPVPVPPMGPGYPVSGGGMPLPHIQMTPYPQLPQMPTPSYP 317
F M P+P P G+P P P M P PQ+P M + P
Sbjct: 381 FKSAMAIPMPSMPHVQGFP------PFP---MMPLPQMPPMMMIANP 418
>gnl|CDD|130689 TIGR01628, PABP-1234, polyadenylate binding protein, human types 1,
2, 3, 4 family. These eukaryotic proteins recognize the
poly-A of mRNA and consists of four tandem RNA
recognition domains at the N-terminus (rrm: pfam00076)
followed by a PABP-specific domain (pfam00658) at the
C-terminus. The protein is involved in the transport of
mRNA's from the nucleus to the cytoplasm. There are four
paralogs in Homo sapiens which are expressed in testis
(GP:11610605_PABP3 ), platelets (SP:Q13310_PABP4 ),
broadly expressed (SP:P11940_PABP1) and of unknown
tissue range (SP:Q15097_PABP2).
Length = 562
Score = 27.8 bits (62), Expect = 8.6
Identities = 11/57 (19%), Positives = 15/57 (26%), Gaps = 2/57 (3%)
Query: 264 GHNGGSSSFGGMYPPVPVPPMGPGYPVSGGGMPLPHIQMTPYPQLPQMPTPSYPFYK 320
G S M P P+ P G + + P P P Y+
Sbjct: 415 GWPRMSMMPTPMGPGGPLRPNGLAPMNAVRAPSRNAQNAA--QKPPMQPVMYPPNYQ 469
>gnl|CDD|222878 PHA02562, 46, endonuclease subunit; Provisional.
Length = 562
Score = 27.7 bits (62), Expect = 8.9
Identities = 24/147 (16%), Positives = 58/147 (39%), Gaps = 14/147 (9%)
Query: 70 KSQLLDLNEQLTQLSKSVESKVELIKSHKNNV-----STDTVLALLQTAASEIEEESETT 124
K ++ +LN+Q+ L ++ + IK++ N+ +A Q ++ +E E
Sbjct: 173 KDKIRELNQQIQTLDMKIDHIQQQIKTYNKNIEEQRKKNGENIARKQ---NKYDELVEEA 229
Query: 125 ESNEQKEMLIASNKSLAEYNLSQEEALLEKKSQLLDLNEQLTQLSKSVESKVELIKSHKN 184
++ + + + L + E + + L LN ++ +E ++IK ++
Sbjct: 230 KTIKAEIEEL--TDELLNLVMDIE----DPSAALNKLNTAAAKIKSKIEQFQKVIKMYEK 283
Query: 185 NVSTDTVLALLQTAASEIEEESEKVPE 211
T + I + +K+ E
Sbjct: 284 GGVCPTCTQQISEGPDRITKIKDKLKE 310
>gnl|CDD|151377 pfam10930, DUF2737, Protein of unknown function (DUF2737). This
family of proteins has no known function.
Length = 54
Score = 25.3 bits (55), Expect = 9.4
Identities = 10/24 (41%), Positives = 11/24 (45%)
Query: 237 RRIKADKMAEMLTKRNSFGSPTHN 260
+ K E L KRNSF S N
Sbjct: 19 HKHKPMPTREELLKRNSFPSVNEN 42
>gnl|CDD|234501 TIGR04211, SH3_and_anchor, SH3 domain protein. Members of this
protein family have a signal peptide, a strongly
conserved SH3 domain, a variable region, and then a
C-terminal hydrophobic transmembrane alpha helix region.
Length = 198
Score = 27.3 bits (61), Expect = 9.4
Identities = 20/97 (20%), Positives = 43/97 (44%), Gaps = 3/97 (3%)
Query: 39 TESNEQKEMLIASNKSLAEYNLSQEEALLEKKSQLLDLNEQLTQLSKSVESKVELIKSHK 98
E E+ L L + N ++ L +++L L ++L ++ + + +EL + ++
Sbjct: 76 AELQEELAELQEQLAELQQENQELKQELSTLEAELERLQKELARIKQLSANAIELDEENR 135
Query: 99 NNVSTDTVLALLQTAASEIEEESETTESNEQKEMLIA 135
LA L+ +E E+E + NEQ+ +
Sbjct: 136 ELREE---LAELKQENEALEAENERLQENEQRRWFLY 169
>gnl|CDD|236892 PRK11281, PRK11281, hypothetical protein; Provisional.
Length = 1113
Score = 28.0 bits (63), Expect = 10.0
Identities = 39/168 (23%), Positives = 63/168 (37%), Gaps = 18/168 (10%)
Query: 42 NEQKEMLIASNKSLAEYNLSQEEALLEK----KSQLLDLNEQLTQLSKSVESKVELIKSH 97
N+QK L A +K + + +L Q ALL+K K + L +QL Q + +++
Sbjct: 49 NKQKL-LEAEDKLVQQ-DLEQTLALLDKIDRQKEETEQLKQQLAQAPAKLRQAQAELEAL 106
Query: 98 KNNVSTDTVLALLQTAASEIEEESETTESNEQKEMLIASNKSLAEYN--LSQEEALLEKK 155
K++ +T L + ++E T Q + LAEYN L + E+
Sbjct: 107 KDDNDEETRETLSTLSLRQLESRLAQTLDQLQN-----AQNDLAEYNSQLVSLQTQPERA 161
Query: 156 SQLLDLNEQLTQ-----LSKSVESKVELIKSHKNNVSTDTVLALLQTA 198
L N Q Q L L S + + + L Q
Sbjct: 162 QAALYANSQRLQQIRNLLKGGKVGGKALRPSQRVLLQAEQALLNAQND 209
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
0.305 0.124 0.327
Gapped
Lambda K H
0.267 0.0647 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 15,545,113
Number of extensions: 1464759
Number of successful extensions: 1902
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1776
Number of HSP's successfully gapped: 303
Length of query: 320
Length of database: 10,937,602
Length adjustment: 97
Effective length of query: 223
Effective length of database: 6,635,264
Effective search space: 1479663872
Effective search space used: 1479663872
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 43 (22.0 bits)
S2: 59 (26.7 bits)