RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy4946
(165 letters)
>gnl|CDD|235461 PRK05431, PRK05431, seryl-tRNA synthetase; Provisional.
Length = 425
Score = 34.7 bits (81), Expect = 0.015
Identities = 24/85 (28%), Positives = 42/85 (49%), Gaps = 15/85 (17%)
Query: 65 LSLDTSRAQRELVSQLESKNRE---IMREIARLRRQQELEGVCASGFEDNPALMSELRAL 121
L LD R REL ++LE E + +EI + +R+ E D AL++E++ L
Sbjct: 31 LELDEER--RELQTELEELQAERNALSKEIGQAKRKGE----------DAEALIAEVKEL 78
Query: 122 RMRKDELESHLASLQDSRRHLMVQL 146
+ LE+ L L+ L++++
Sbjct: 79 KEEIKALEAELDELEAELEELLLRI 103
>gnl|CDD|234342 TIGR03752, conj_TIGR03752, integrating conjugative element protein,
PFL_4705 family. Members of this protein family are
found occasionally on plasmids such as the Pseudomonas
putida toluene catabolic TOL plasmid pWWO_p085. Usually,
however, they are found on the bacterial main chromosome
in regions flanked by markers of conjugative transfer
and/or transposition [Mobile and extrachromosomal
element functions, Plasmid functions].
Length = 472
Score = 32.7 bits (75), Expect = 0.067
Identities = 22/96 (22%), Positives = 44/96 (45%), Gaps = 12/96 (12%)
Query: 62 EGSLSLDT-------SRAQRELVSQLESKNREIMREIARLRRQQELEGVCASGFEDNPAL 114
EG DT + R+ +++L S+N + E RL+++++ + + A+
Sbjct: 53 EGDTPADTLRTLVAEVKELRKRLAKLISENEALKAENERLQKREQ-----SIDQQIQQAV 107
Query: 115 MSELRALRMRKDELESHLASLQDSRRHLMVQLEGLM 150
SE + L ++L+S LQ L +L G++
Sbjct: 108 QSETQELTKEIEQLKSERQQLQGLIDQLQRRLAGVL 143
>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 = 31.6 bits (72), Expect = 0.18
Identities = 22/88 (25%), Positives = 37/88 (42%), Gaps = 11/88 (12%)
Query: 57 GKAPSEGSLSLDTSRAQRELVSQLESKNREIMREIARLRRQ-QELEGVCASGFEDNPALM 115
+ E SL+L+ L +++E E R + RL + +EL V N A +
Sbjct: 943 ERLSEEYSLTLE---EAEALENKIEDDEEEARRRLKRLENKIKELGPV-------NLAAI 992
Query: 116 SELRALRMRKDELESHLASLQDSRRHLM 143
E L+ R D L + L +++ L
Sbjct: 993 EEYEELKERYDFLTAQKEDLTEAKETLE 1020
>gnl|CDD|224117 COG1196, Smc, Chromosome segregation ATPases [Cell division and
chromosome partitioning].
Length = 1163
Score = 31.6 bits (72), Expect = 0.20
Identities = 28/127 (22%), Positives = 51/127 (40%), Gaps = 2/127 (1%)
Query: 31 EASRLDDEHKLIARYAAKLAAENRSVGKAPSEGSLSLDTSRAQRELVSQLESKNREIMRE 90
E S L + + + +L + + L+ E + QL ++ E E
Sbjct: 303 EISLLRERLEELENELEELEERLEELKEKIEALKEELEERETLLEELEQLLAELEEAKEE 362
Query: 91 IARLRRQ--QELEGVCASGFEDNPALMSELRALRMRKDELESHLASLQDSRRHLMVQLEG 148
+ +ELE + + E+ L +EL +R +EL+ + SL++ L +LE
Sbjct: 363 LEEKLSALLEELEELFEALREELAELEAELAEIRNELEELKREIESLEERLERLSERLED 422
Query: 149 LMRLLKT 155
L LK
Sbjct: 423 LKEELKE 429
Score = 30.8 bits (70), Expect = 0.29
Identities = 25/120 (20%), Positives = 51/120 (42%), Gaps = 8/120 (6%)
Query: 28 GTLEASRLDDEHKLIARYAAKLAAENRSVGKAPSEGSLSLDTSRAQRELVSQLESKNREI 87
G+ + + + +LA + K E + R+ +L+ +L + E+
Sbjct: 655 GSRNKRSSLAQKRELKELEEELAELEAQLEKLEEELKSLKNELRSLEDLLEELRRQLEEL 714
Query: 88 MREIARLRRQ--------QELEGVCASGFEDNPALMSELRALRMRKDELESHLASLQDSR 139
R++ L+R+ ++L+ E+ L EL L+ R +ELE L SL+++
Sbjct: 715 ERQLEELKRELAALEEELEQLQSRLEELEEELEELEEELEELQERLEELEEELESLEEAL 774
Score = 26.6 bits (59), Expect = 7.1
Identities = 20/125 (16%), Positives = 43/125 (34%), Gaps = 6/125 (4%)
Query: 33 SRLDDEHKLIARYAAKLAAENRSVGKAPSEGSLSLDTSRAQRELVSQLESKNREIMREIA 92
L + + +L + + + SE + +E + +L+ + E+ EI+
Sbjct: 246 EELSRLEEELEELQEELEEAEKEIEELKSELEELREELEELQEELLELKEEIEELEGEIS 305
Query: 93 RLRRQQELEGVCASGFEDNPALMSELRALRMRKDELESHLASLQDSRRHLMVQLEGLMRL 152
LR + E + L L L+ + + L+ L + L L L
Sbjct: 306 LLRERLE------ELENELEELEERLEELKEKIEALKEELEERETLLEELEQLLAELEEA 359
Query: 153 LKTHQ 157
+ +
Sbjct: 360 KEELE 364
>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 = 31.6 bits (72), Expect = 0.20
Identities = 25/122 (20%), Positives = 46/122 (37%), Gaps = 12/122 (9%)
Query: 33 SRLDDEHKLIARYAAKLAAENRSVGKAPSEGSLSLDTSRAQRELVSQLESKNREIMREIA 92
+ + K + L N+ + E L + EL +++ S R I
Sbjct: 258 EEISELEKRLEEIEQLLEELNKKIKDLGEEEQLRVKEKIG--ELEAEIASLERSIA---E 312
Query: 93 RLRRQQELEGVCASGFEDNPALMSELRAL-------RMRKDELESHLASLQDSRRHLMVQ 145
+ R ++ E A + L++E+ L R R+D+L A L++ L +
Sbjct: 313 KERELEDAEERLAKLEAEIDKLLAEIEELEREIEEERKRRDKLTEEYAELKEELEDLRAE 372
Query: 146 LE 147
LE
Sbjct: 373 LE 374
Score = 29.7 bits (67), Expect = 0.72
Identities = 19/125 (15%), Positives = 45/125 (36%), Gaps = 14/125 (11%)
Query: 32 ASRLDDEHKLIARYAAKLAAENRSVGKAPSEGSLSLDTSRAQRELVSQLESKNREIMREI 91
S L + + +L+ +R +G+ E +E + +LE + +EI
Sbjct: 694 QSELRRIENRLDELSQELSDASRKIGEIEKEIEQLEQEEEKLKERLEELEEDLSSLEQEI 753
Query: 92 ARLRRQQELEGVCASGFEDNPALMSELRALRMRKDELESHLASLQDSRRHLMV-QLEGLM 150
++ + + L + + L +LE L L+ H + +++ +
Sbjct: 754 ENVKSELK-------------ELEARIEELEEDLHKLEEALNDLEARLSHSRIPEIQAEL 800
Query: 151 RLLKT 155
L+
Sbjct: 801 SKLEE 805
>gnl|CDD|235316 PRK04863, mukB, cell division protein MukB; Provisional.
Length = 1486
Score = 30.3 bits (69), Expect = 0.44
Identities = 24/89 (26%), Positives = 43/89 (48%), Gaps = 4/89 (4%)
Query: 67 LDTSRAQRELVSQLESKNREIMREIARLRRQ--QELEGVCASGFEDNPALMSELRALRMR 124
++ RA+RE +++ + ++++ RL + + + A FE +P +ELR L R
Sbjct: 788 IEQLRAEREELAERYATLSFDVQKLQRLHQAFSRFIGSHLAVAFEADPE--AELRQLNRR 845
Query: 125 KDELESHLASLQDSRRHLMVQLEGLMRLL 153
+ ELE LA + + QLE L
Sbjct: 846 RVELERALADHESQEQQQRSQLEQAKEGL 874
>gnl|CDD|200086 TIGR01225, hutH, histidine ammonia-lyase. This enzyme deaminates
histidine to urocanic acid, the first step in histidine
degradation. It is closely related to phenylalanine
ammonia-lyase [Energy metabolism, Amino acids and
amines].
Length = 506
Score = 30.1 bits (68), Expect = 0.58
Identities = 28/103 (27%), Positives = 45/103 (43%), Gaps = 9/103 (8%)
Query: 41 LIARY-AAKLAAENRSVGKAPSEGSLSLDTSRAQRELVSQLESKNREIMREIARLRRQQE 99
+IA+Y AA L +EN+++ S S+ TS Q + VS R++ I +RR
Sbjct: 379 MIAQYTAAALVSENKALSHPASVDSIP--TSANQEDHVSMGAHAARKLREMIENVRRVIA 436
Query: 100 LEGVCASG---FEDNPALMSELRALRMRKDELESHLASLQDSR 139
+E + A F D ++L + S +A L R
Sbjct: 437 IELLAACQGLEFRDPLKTSAKLEKAY---QAVRSVVAPLDGDR 476
>gnl|CDD|236263 PRK08425, flgE, flagellar hook protein FlgE; Validated.
Length = 731
Score = 30.0 bits (68), Expect = 0.64
Identities = 12/42 (28%), Positives = 20/42 (47%), Gaps = 1/42 (2%)
Query: 2 LSNTFD-VSSMDSRSTSTARSPGRYNMGTLEASRLDDEHKLI 42
S +FD ++S+D S + A Y G L R D + ++
Sbjct: 587 TSGSFDGLTSVDKISETYAIEQDGYTAGDLMDIRFDSDGTIL 628
>gnl|CDD|215277 PLN02501, PLN02501, digalactosyldiacylglycerol synthase.
Length = 794
Score = 29.9 bits (67), Expect = 0.65
Identities = 35/153 (22%), Positives = 65/153 (42%), Gaps = 22/153 (14%)
Query: 2 LSNTFDVSSMDSRSTSTARSPGRYNMGTLEASRLDDEHKLIARYAAKLAAENRSVGKAPS 61
L+++FD + ++++ S + +G+ AS E + + K++ E R V AP
Sbjct: 44 LASSFDREIENFFNSASRSS---FPVGSPSASSFPTEIDFVKKLQPKIS-EFRRVYSAPE 99
Query: 62 -----------EGSLSLDTSRAQRELVSQLESKNREIMREIARLRRQQE----LEGVCAS 106
L +D S + +V+++E +R + E R+RR++
Sbjct: 100 ISRKVLEKWGPRAKLGIDLSAIKNAIVAEMELDDRGGIVEFDRVRRRRNSRVRFTEFWGE 159
Query: 107 GFEDNPALMSE---LRALRMRKDELESHLASLQ 136
E+ E +RAL+ R ELE SL+
Sbjct: 160 AKEEGEGQFGEWEPIRALKTRFRELEKRSESLE 192
>gnl|CDD|202833 pfam03962, Mnd1, Mnd1 family. This family of proteins includes
MND1 from S. cerevisiae. The mnd1 protein forms a
complex with hop2 to promote homologous chromosome
pairing and meiotic double-strand break repair.
Length = 188
Score = 29.5 bits (67), Expect = 0.66
Identities = 14/71 (19%), Positives = 30/71 (42%)
Query: 68 DTSRAQRELVSQLESKNREIMREIARLRRQQELEGVCASGFEDNPALMSELRALRMRKDE 127
+ + +L+ + E+ + IA L+ Q E E+ L+ EL+ L +
Sbjct: 62 QALNKLKTRLEKLKKELEELKQRIAELQAQIEKLKKGREETEERTELLEELKQLEKELKK 121
Query: 128 LESHLASLQDS 138
L++ L + +
Sbjct: 122 LKAELEKYEKN 132
>gnl|CDD|224495 COG1579, COG1579, Zn-ribbon protein, possibly nucleic acid-binding
[General function prediction only].
Length = 239
Score = 29.6 bits (67), Expect = 0.67
Identities = 22/76 (28%), Positives = 31/76 (40%), Gaps = 11/76 (14%)
Query: 74 RELVSQLESKNREIMREIARLRRQQELEGVCASGFEDNPALMSELRALRMRKDELESHLA 133
VSQLES+ +EI I R + ELRAL + + +
Sbjct: 58 ENQVSQLESEIQEIRERIKRAEEKL-----------SAVKDERELRALNIEIQIAKERIN 106
Query: 134 SLQDSRRHLMVQLEGL 149
SL+D LM ++E L
Sbjct: 107 SLEDELAELMEEIEKL 122
>gnl|CDD|218661 pfam05622, HOOK, HOOK protein. This family consists of several
HOOK1, 2 and 3 proteins from different eukaryotic
organisms. The different members of the human gene
family are HOOK1, HOOK2 and HOOK3. Different domains
have been identified in the three human HOOK proteins,
and it was demonstrated that the highly conserved
NH2-domain mediates attachment to microtubules, whereas
the central coiled-coil motif mediates homodimerisation
and the more divergent C-terminal domains are involved
in binding to specific organelles (organelle-binding
domains). It has been demonstrated that endogenous HOOK3
binds to Golgi membranes, whereas both HOOK1 and HOOK2
are localised to discrete but unidentified cellular
structures. In mice the Hook1 gene is predominantly
expressed in the testis. Hook1 function is necessary for
the correct positioning of microtubular structures
within the haploid germ cell. Disruption of Hook1
function in mice causes abnormal sperm head shape and
fragile attachment of the flagellum to the sperm head.
Length = 713
Score = 29.8 bits (67), Expect = 0.74
Identities = 31/120 (25%), Positives = 47/120 (39%), Gaps = 18/120 (15%)
Query: 51 AENRSVGKAPSEGSLSLDTSRAQ------RELVSQLESKNREIMREIARLRRQQELEGVC 104
A+ + +A + S S D A+ RE + +L+ +N+ LR QE
Sbjct: 429 AQQDQLTQADAGTSPSGDNLAAELLPSEYREKLIRLQHENK-------MLRLGQE----- 476
Query: 105 ASGFEDNPALMSELRALRMRKDELESHLASLQDSRRHLMVQLEGLMRLLKTHQGTSPNSS 164
S E L L R +ELE+ L L Q+E L + L+ S +SS
Sbjct: 477 GSENERITELQQLLEDANRRNNELETQLRLANQRILELQQQVEDLQKALQEQGSKSEDSS 536
>gnl|CDD|215643 PLN03241, PLN03241, magnesium chelatase subunit H; Provisional.
Length = 1315
Score = 29.5 bits (66), Expect = 0.92
Identities = 24/119 (20%), Positives = 40/119 (33%), Gaps = 13/119 (10%)
Query: 16 TSTARSPGRYNMGTLEASRLDDEHKLIARYAAKLAAE--NRSVGKAPSEGSLSLDTSRAQ 73
T++ R+ + H A AE S G + + T R
Sbjct: 13 TASTRTLLGSRRSARRPAGSRPCHAAPTFAALAAVAEADEDSAGSPQPKKHNTARTRRIV 72
Query: 74 RELVSQLESKNREIMREIARLRRQQELEGVCASGFEDNPALMSELRALRMRKDELESHL 132
LVS ES N + ++ ARL +++ V F D R + ++ + L
Sbjct: 73 --LVSGFESFNVGLYKQAARLLKRRCP-NVDLVVFSD--------RDIESDRERFAAAL 120
>gnl|CDD|225803 COG3264, COG3264, Small-conductance mechanosensitive channel [Cell
envelope biogenesis, outer membrane].
Length = 835
Score = 28.9 bits (65), Expect = 1.2
Identities = 21/126 (16%), Positives = 42/126 (33%), Gaps = 19/126 (15%)
Query: 23 GRYNMGTLEASRLDDEHKLIARYAAKL-AAENRSVGKAPSEGSLSLDTSRAQRELVSQLE 81
G + L SR + A+ A L + K E + + + Q EL+ Q
Sbjct: 5 GNNVLQELLQSRRELLTAESAQLEAALQLLQEAVNSKRQEEAEPAAEEAELQAELIQQEL 64
Query: 82 SKNREIMREIARLRRQQELEGVCASGFEDNPALMSELRALRMRKDELESHL--------A 133
+ N ++ + + + + D+ +L L ++ + +
Sbjct: 65 AINDQLSQALNQQTERLNALA------SDD----RQLANLLLQLLQSSRTIREQIAVLRG 114
Query: 134 SLQDSR 139
SL SR
Sbjct: 115 SLLLSR 120
>gnl|CDD|217020 pfam02403, Seryl_tRNA_N, Seryl-tRNA synthetase N-terminal domain.
This domain is found associated with the Pfam tRNA
synthetase class II domain (pfam00587) and represents
the N-terminal domain of seryl-tRNA synthetase.
Length = 108
Score = 27.9 bits (63), Expect = 1.2
Identities = 25/98 (25%), Positives = 44/98 (44%), Gaps = 15/98 (15%)
Query: 52 ENRSVGKAPSEGSLSLDTSRAQRELVSQLESKNRE---IMREIARLRRQQELEGVCASGF 108
R V + L LD R REL +LE E + +EI + ++++E
Sbjct: 19 RKRGVDVLDVDELLELDEER--RELQVELEELQAERNELSKEIGKAKKKKE--------- 67
Query: 109 EDNPALMSELRALRMRKDELESHLASLQDSRRHLMVQL 146
D AL++E++ L+ LE+ L L+ L++ +
Sbjct: 68 -DAEALIAEVKELKDELKALEAELRELEAELDKLLLSI 104
>gnl|CDD|188995 cd06456, M3A_DCP, Peptidase family M3 dipeptidyl carboxypeptidase
(DCP). Peptidase family M3 dipeptidyl carboxypeptidase
(DCP; Dcp II; peptidyl dipeptidase; EC 3.4.15.5). This
metal-binding M3A family also includes oligopeptidase A
(OpdA; EC 3.4.24.70) enzyme. DCP cleaves dipeptides off
the C-termini of various peptides and proteins, the
smallest substrate being N-blocked tripeptides and
unblocked tetrapeptides. DCP from E. coli is inhibited
by the anti-hypertensive drug captopril, an inhibitor of
the mammalian angiotensin converting enzyme (ACE, also
called peptidyl dipeptidase A). Oligopeptidase A (OpdA)
may play a specific role in the degradation of signal
peptides after they are released from precursor forms of
secreted proteins. It can also cleave N-acetyl-L-Ala.
Length = 654
Score = 28.2 bits (64), Expect = 2.0
Identities = 7/15 (46%), Positives = 10/15 (66%)
Query: 84 NREIMREIARLRRQQ 98
NR I+ EI LR ++
Sbjct: 233 NRPIIEEILALRAEK 247
>gnl|CDD|238267 cd00480, malate_synt, Malate synthase catalyzes the Claisen
condensation of glyoxylate and acetyl-CoA to malyl-CoA ,
which hydrolyzes to malate and CoA. This reaction is
part of the glyoxylate cycle, which allows certain
organisms, like plants and fungi, to derive their carbon
requirements from two-carbon compounds, by bypassing the
two carboxylation steps of the citric acid cycle.
Length = 511
Score = 28.4 bits (64), Expect = 2.2
Identities = 10/31 (32%), Positives = 15/31 (48%), Gaps = 2/31 (6%)
Query: 75 ELVSQLESKNREIMREIARLRRQQELEGVCA 105
EL + + RE++ AR RQ L+ A
Sbjct: 7 ELHREFNPRRRELLA--ARDERQARLDAGHA 35
>gnl|CDD|227542 COG5217, BIM1, Microtubule-binding protein involved in cell cycle
control [Cell division and chromosome partitioning /
Cytoskeleton].
Length = 342
Score = 27.7 bits (61), Expect = 3.1
Identities = 20/79 (25%), Positives = 32/79 (40%), Gaps = 10/79 (12%)
Query: 43 ARYAAKLAAEN---RSVGKAPSEGSLSLDTSRAQRELVSQLESKNREIMREIARLRRQQE 99
A Y KL + ++ + S+ TS REIM A+ R +E
Sbjct: 213 AFYFNKLRSIEILVETLKREGPRASILPGTSLQCPHC-----KNTREIM--DAKDNRIKE 265
Query: 100 LEGVCASGFEDNPALMSEL 118
+ + ASGFE + ++L
Sbjct: 266 ILYMTASGFERIMDMEADL 284
>gnl|CDD|219934 pfam08614, ATG16, Autophagy protein 16 (ATG16). Autophagy is a
ubiquitous intracellular degradation system for
eukaryotic cells. During autophagy, cytoplasmic
components are enclosed in autophagosomes and delivered
to lysosomes/vacuoles. ATG16 (also known as Apg16) has
been shown to be bind to Apg5 and is required for the
function of the Apg12p-Apg5p conjugate in the yeast
autophagy pathway.
Length = 194
Score = 27.5 bits (61), Expect = 3.2
Identities = 29/126 (23%), Positives = 51/126 (40%), Gaps = 3/126 (2%)
Query: 33 SRLDDEHKLIARYAAKLAAENRSVGKAPSEGSLSLDT-SRAQRELVSQLESKNREIMREI 91
+L D +L+ L AE + S + S A + Q +K RE + E+
Sbjct: 27 RQLADRTRLLKVENDALQAEKYEQQSSHSSSPSADGPGSDAAIAEMEQKLAKLREELTEL 86
Query: 92 ARLRRQQELEGVCASGFEDNPALMSELRALRMRKDELESHLASLQDSRRHLMVQLEGLMR 151
+++ EL ++ L E++ L EL S + SL+ R L +L+ +
Sbjct: 87 --HKKRGELAQRLLLLNDELEQLRREIQQLEKTIAELRSEITSLETEIRDLREELQEKEK 144
Query: 152 LLKTHQ 157
+T Q
Sbjct: 145 DNETLQ 150
>gnl|CDD|200948 pfam00038, Filament, Intermediate filament protein.
Length = 312
Score = 27.5 bits (62), Expect = 3.4
Identities = 21/86 (24%), Positives = 37/86 (43%), Gaps = 2/86 (2%)
Query: 64 SLSLDTSRAQRELVSQLESKNREIMREIARLRRQQ--ELEGVCASGFEDNPALMSELRAL 121
+ LD ++A E+ +Q E + +E + + EL+ A + + E+ L
Sbjct: 162 ARKLDLTKALAEIRAQYEELAEKNRQEAEEWYKSKLEELQQAAARNGDALRSAKEEITEL 221
Query: 122 RMRKDELESHLASLQDSRRHLMVQLE 147
R + LE L SL+ + L QL
Sbjct: 222 RRQIQSLEIELQSLKKQKASLERQLA 247
>gnl|CDD|220614 pfam10174, Cast, RIM-binding protein of the cytomatrix active zone.
This is a family of proteins that form part of the CAZ
(cytomatrix at the active zone) complex which is
involved in determining the site of synaptic vesicle
fusion. The C-terminus is a PDZ-binding motif that binds
directly to RIM (a small G protein Rab-3A effector). The
family also contains four coiled-coil domains.
Length = 774
Score = 27.3 bits (60), Expect = 4.5
Identities = 25/135 (18%), Positives = 55/135 (40%), Gaps = 1/135 (0%)
Query: 30 LEASRLDDEHKLIARYAAKLAAENRSVGKAPSEGSLSLDTSRAQRELVSQLESKNREIMR 89
E + DE I + +L A + ++QREL ++L+ K +
Sbjct: 43 RERALRKDEAARITVWKEQLRVTQEENQHAQLTVQALQEELKSQREL-NRLQQKLEKSGN 101
Query: 90 EIARLRRQQELEGVCASGFEDNPALMSELRALRMRKDELESHLASLQDSRRHLMVQLEGL 149
E L++ ++ EG + + EL LR ++L+ + LQ + +++ L
Sbjct: 102 ETGELQQLEKSEGQFSRIQAERERQAMELFLLRDTLEKLQLRMERLQQTLDARDEEIKKL 161
Query: 150 MRLLKTHQGTSPNSS 164
+ +L++ ++
Sbjct: 162 LEMLQSKGLSAKAEE 176
>gnl|CDD|178538 PLN02952, PLN02952, phosphoinositide phospholipase C.
Length = 599
Score = 27.3 bits (60), Expect = 5.3
Identities = 17/109 (15%), Positives = 41/109 (37%), Gaps = 10/109 (9%)
Query: 11 MDSRSTSTARSPGRYNMGTLEASRLDDEHKLIARYAAKLAAENRSVGKAPSEGSLSLDTS 70
++S + + +S +E + + + A++RS S
Sbjct: 273 LESSGPIVIKKKNNVSPSGRNSSEETEEAQTLESMLFEQEADSRSDSDQDDNKS-GELQK 331
Query: 71 RAQRELVSQLESKNREIMRE-----IARLRR----QQELEGVCASGFED 110
A + L++ K + +++ + ++RR +QELE + +D
Sbjct: 332 PAYKRLITIHAGKPKGTLKDAMKVAVDKVRRLSLSEQELEKAATTNGQD 380
>gnl|CDD|218915 pfam06156, DUF972, Protein of unknown function (DUF972). This
family consists of several hypothetical bacterial
sequences. The function of this family is unknown.
Length = 106
Score = 25.7 bits (57), Expect = 6.7
Identities = 18/56 (32%), Positives = 30/56 (53%), Gaps = 8/56 (14%)
Query: 75 ELVSQLESKNREIMREIARLRRQ-QELEGVCASGFEDNPALMSELRALRMRKDELE 129
+ +S+LE + +++ E+ L++Q EL E+N L E LR R +ELE
Sbjct: 8 DALSELEQQLNQLLAELGELKQQLAELL-------EENAELRIENEHLRERLEELE 56
>gnl|CDD|237654 PRK14278, PRK14278, chaperone protein DnaJ; Provisional.
Length = 378
Score = 26.6 bits (59), Expect = 6.9
Identities = 11/42 (26%), Positives = 21/42 (50%), Gaps = 3/42 (7%)
Query: 78 SQLESKNREIMREIARLRRQQELEGVCASGFEDNPALMSELR 119
++L+ ++ E++RE+ LR ++ E L S LR
Sbjct: 334 TRLDHEDIELLRELKALRGREVAEVRSTHA---QGGLFSRLR 372
>gnl|CDD|223092 COG0013, AlaS, Alanyl-tRNA synthetase [Translation, ribosomal
structure and biogenesis].
Length = 879
Score = 26.5 bits (59), Expect = 7.7
Identities = 7/36 (19%), Positives = 16/36 (44%)
Query: 66 SLDTSRAQRELVSQLESKNREIMREIARLRRQQELE 101
L V +L + +E+ +E+ RL+++
Sbjct: 723 LLKVPPELLPKVERLLEELKELEKELERLKKKLAAA 758
>gnl|CDD|203371 pfam06005, DUF904, Protein of unknown function (DUF904). This
family consists of several bacterial and archaeal
hypothetical proteins of unknown function.
Length = 72
Score = 24.9 bits (55), Expect = 8.7
Identities = 19/62 (30%), Positives = 35/62 (56%), Gaps = 1/62 (1%)
Query: 75 ELVSQLESKNREIMREIARLRRQ-QELEGVCASGFEDNPALMSELRALRMRKDELESHLA 133
EL+ +LESK ++ + IA L+ + +EL+ E+N L E + L+ ++ +S L
Sbjct: 4 ELLEELESKIQQAVETIALLQMEIEELKEENEQLSEENEELEEENKKLKEERNAWQSRLR 63
Query: 134 SL 135
+L
Sbjct: 64 AL 65
>gnl|CDD|216699 pfam01786, AOX, Alternative oxidase. The alternative oxidase is
used as a second terminal oxidase in the mitochondria,
electrons are transfered directly from reduced ubiquinol
to oxygen forming water. This is not coupled to ATP
synthesis and is not inhibited by cyanide, this pathway
is a single step process. In rice the transcript levels
of the alternative oxidase are increased by low
temperature.
Length = 214
Score = 26.0 bits (58), Expect = 9.5
Identities = 10/33 (30%), Positives = 17/33 (51%)
Query: 115 MSELRALRMRKDELESHLASLQDSRRHLMVQLE 147
+ LR L+ +E+ L ++ R HL+ LE
Sbjct: 76 LRSLRRLKRDGGWIETLLEEAENERMHLLTFLE 108
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
0.312 0.125 0.328
Gapped
Lambda K H
0.267 0.0735 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 7,947,773
Number of extensions: 720730
Number of successful extensions: 1118
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1076
Number of HSP's successfully gapped: 186
Length of query: 165
Length of database: 10,937,602
Length adjustment: 90
Effective length of query: 75
Effective length of database: 6,945,742
Effective search space: 520930650
Effective search space used: 520930650
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: 55 (25.0 bits)