RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy1437
(232 letters)
>gnl|CDD|178203 PLN02593, PLN02593, adrenodoxin-like ferredoxin protein.
Length = 117
Score = 173 bits (440), Expect = 1e-55
Identities = 63/117 (53%), Positives = 84/117 (71%), Gaps = 1/117 (0%)
Query: 117 VNITFIDKDGKRREIKGKVGDNVLYLAHRYEIPMEGACEASLACTTCHVYVKHE-YLDAL 175
+++TF+DKDG+ R +K VG ++L AH +I +EGACE SLAC+TCHV V E + L
Sbjct: 1 ISVTFVDKDGEERTVKAPVGMSLLEAAHENDIELEGACEGSLACSTCHVIVMDEKVYNKL 60
Query: 176 PPAEEKEDDLLDLAPFLKDNSRLGCQIILTKELEGIEVTLPKATRNFYVDGHTPKPH 232
P ++E+D+LDLA L + SRLGCQ+I EL+G+ + LP ATRNF VDGH PKPH
Sbjct: 61 PEPTDEENDMLDLAFGLTETSRLGCQVIAKPELDGMRLALPAATRNFAVDGHVPKPH 117
>gnl|CDD|131062 TIGR02007, fdx_isc, ferredoxin, 2Fe-2S type, ISC system. This
family consists of proteobacterial ferredoxins
associated with and essential to the ISC system of
2Fe-2S cluster assembly. This family is closely related
to (but excludes) eukaryotic (mitochondrial)
adrenodoxins, which are ferredoxins involved in electron
transfer to P450 cytochromes [Biosynthesis of cofactors,
prosthetic groups, and carriers, Other].
Length = 110
Score = 84.5 bits (209), Expect = 3e-21
Identities = 39/91 (42%), Positives = 56/91 (61%), Gaps = 3/91 (3%)
Query: 131 IKGKVGDNVLYLAHRYEIPMEGACEASLACTTCHVYVKHEYLDALPPAEEKEDDLLDLAP 190
++ K G+ +L +A I +E ACE S ACTTCH V+ E D+L A E+E+D+LD A
Sbjct: 18 VEAKPGETILDVALDNGIEIEHACEKSCACTTCHCIVR-EGFDSLEEASEQEEDMLDKAW 76
Query: 191 FLKDNSRLGCQIILTKELEGIEVTLPKATRN 221
L+ +SRL CQ ++ E + V +PK T N
Sbjct: 77 GLEPDSRLSCQAVVAD--EDLVVEIPKYTIN 105
>gnl|CDD|185668 PTZ00490, PTZ00490, Ferredoxin superfamily; Provisional.
Length = 143
Score = 78.4 bits (193), Expect = 2e-18
Identities = 30/74 (40%), Positives = 42/74 (56%)
Query: 150 MEGACEASLACTTCHVYVKHEYLDALPPAEEKEDDLLDLAPFLKDNSRLGCQIILTKELE 209
+EG C + C TCHVY+ L E+E+D+L A +K+ SRL CQ+ LT E++
Sbjct: 70 VEGTCNGCMQCATCHVYLSAASFKKLGGPSEEEEDVLAKALDVKETSRLACQVDLTPEMD 129
Query: 210 GIEVTLPKATRNFY 223
G+EV LP N
Sbjct: 130 GLEVELPSYVTNRL 143
>gnl|CDD|223706 COG0633, Fdx, Ferredoxin [Energy production and conversion].
Length = 102
Score = 76.7 bits (189), Expect = 3e-18
Identities = 40/103 (38%), Positives = 54/103 (52%), Gaps = 4/103 (3%)
Query: 118 NITFIDKDGKRREIKGKV-GDNVLYLAHRYEIPMEGACEASLACTTCHVYVKHEYLDALP 176
I F+ DG+ + G+ +L A R IP+E AC AC TC V V + D +
Sbjct: 3 KIAFVTIDGEGDVTEAVNEGETLLEAAERNGIPIEYACRGG-ACGTCRVKVLEGF-DEVS 60
Query: 177 PAEEKEDDLLDLAPFLKDNSRLGCQIILTKELEGIEVTLPKAT 219
P EE E+DLLD A L+ NSRL CQ + +L+ V P+ T
Sbjct: 61 PPEESEEDLLDAA-GLEGNSRLSCQCRVKGDLDIEVVEEPEYT 102
>gnl|CDD|238126 cd00207, fer2, 2Fe-2S iron-sulfur cluster binding domain.
Iron-sulfur proteins play an important role in electron
transfer processes and in various enzymatic reactions.
The family includes plant and algal ferredoxins, which
act as electron carriers in photosynthesis and
ferredoxins, which participate in redox chains (from
bacteria to mammals). Fold is ismilar to thioredoxin.
Length = 84
Score = 46.6 bits (111), Expect = 3e-07
Identities = 23/91 (25%), Positives = 36/91 (39%), Gaps = 9/91 (9%)
Query: 119 ITFIDKDGKRREIKGKVGDNVLYLAHRYEIPMEGACEASLACTTCHVYVKHEYLDALPPA 178
+T G E++ G+ +L A I + +C A AC TC V V +D P+
Sbjct: 1 VTINVP-GSGVEVEVPEGETLLDAAREAGIDIPYSCRAG-ACGTCKVEVVEGEVDQSDPS 58
Query: 179 EEKEDDLLDLAPFLKDNSRLGCQIILTKELE 209
E++ + L CQ +T L
Sbjct: 59 LLDEEE-------AEGGYVLACQTRVTDGLV 82
>gnl|CDD|146707 pfam04212, MIT, MIT (microtubule interacting and transport)
domain. The MIT domain forms an asymmetric three-helix
bundle and binds ESCRT-III (endosomal sorting complexes
required for transport) substrates.
Length = 69
Score = 45.7 bits (109), Expect = 4e-07
Identities = 22/61 (36%), Positives = 31/61 (50%), Gaps = 1/61 (1%)
Query: 11 AQMAVKFDEENQDEIAAYYYQAAARFLLETANSSSDENV-AAWRQKAQQYLNRAEVLKDK 69
+ AV+ DE E A Y+ A +LL+ D A RQK +YL+RAE LK+
Sbjct: 9 VKKAVEADEAGNYEEALELYKEAIEYLLQALKYEPDPKRREALRQKIAEYLDRAEELKEL 68
Query: 70 I 70
+
Sbjct: 69 L 69
>gnl|CDD|239121 cd02656, MIT, MIT: domain contained within Microtubule
Interacting and Trafficking molecules. The MIT domain
is found in sorting nexins, the nuclear thiol protease
PalBH, the AAA protein spastin and archaebacterial
proteins with similar domain architecture, vacuolar
sorting proteins and others. The molecular function of
the MIT domain is unclear.
Length = 75
Score = 42.3 bits (100), Expect = 9e-06
Identities = 20/65 (30%), Positives = 35/65 (53%), Gaps = 1/65 (1%)
Query: 8 INAAQMAVKFDEENQDEIAAYYYQAAARFLLETANSSSDENV-AAWRQKAQQYLNRAEVL 66
+ AVK DE+ E A Y+ A +LL+ + + + R+K ++YL+RAE L
Sbjct: 7 KELIKQAVKEDEDGNYEEALELYKEALDYLLQALKAEKEPKLRKLLRKKVKEYLDRAEFL 66
Query: 67 KDKIQ 71
K+ ++
Sbjct: 67 KELLK 71
>gnl|CDD|215725 pfam00111, Fer2, 2Fe-2S iron-sulfur cluster binding domain.
Length = 77
Score = 39.8 bits (93), Expect = 6e-05
Identities = 22/87 (25%), Positives = 28/87 (32%), Gaps = 13/87 (14%)
Query: 122 IDKDGKRREIKGKVGDNVLYLAHR---YEIPMEGACEASLACTTCHVYVKHEYLDALPPA 178
+ DGK I+ G+ L A +IP +C C TC V V +
Sbjct: 1 VTIDGKGVTIEVPDGETTLLDAAEEAGIDIPY--SCRGG-GCGTCAVKVLEG--EVQSDQ 55
Query: 179 EEKEDDLLDLAPFLKDNSRLGCQIILT 205
EDD L L CQ
Sbjct: 56 SFLEDDELA-----AGYVVLACQTYPK 77
>gnl|CDD|197854 smart00745, MIT, Microtubule Interacting and Trafficking molecule
domain.
Length = 77
Score = 38.1 bits (89), Expect = 3e-04
Identities = 21/59 (35%), Positives = 30/59 (50%), Gaps = 1/59 (1%)
Query: 14 AVKFDEENQDEIAAYYYQAAARFLLE-TANSSSDENVAAWRQKAQQYLNRAEVLKDKIQ 71
A+K DE E A Y+ A +LLE S + A + KA +YL+RAE +K +
Sbjct: 15 ALKADEAGNYEEALELYKKAIEYLLEGIKVESDSKRREALKAKAAEYLDRAEEIKKSLL 73
>gnl|CDD|239144 cd02681, MIT_calpain7_1, MIT: domain contained within Microtubule
Interacting and Trafficking molecules. This sub-family
of MIT domains is found in the nuclear thiol protease
PalBH. The molecular function of the MIT domain is
unclear.
Length = 76
Score = 36.0 bits (83), Expect = 0.001
Identities = 21/63 (33%), Positives = 41/63 (65%), Gaps = 2/63 (3%)
Query: 11 AQMAVKFDEENQDEIAAYYYQAAARFLL--ETANSSSDENVAAWRQKAQQYLNRAEVLKD 68
A++AV+ D+E + A +YY+ AA+ L+ E A + +D ++ ++K+ +YL+RA+ L
Sbjct: 10 ARLAVQRDQEGRYSEAVFYYKEAAQLLIYAEMAGTLNDSHLKTIQEKSNEYLDRAQALHQ 69
Query: 69 KIQ 71
+Q
Sbjct: 70 LVQ 72
>gnl|CDD|239145 cd02682, MIT_AAA_Arch, MIT: domain contained within Microtubule
Interacting and Trafficking molecules. This sub-family
of MIT domains is found in mostly archaebacterial
AAA-ATPases. The molecular function of the MIT domain
is unclear.
Length = 75
Score = 35.6 bits (82), Expect = 0.002
Identities = 19/69 (27%), Positives = 27/69 (39%), Gaps = 1/69 (1%)
Query: 3 LPEEVINAAQMAVKFDEENQDEIAAYYYQAAARFLLE-TANSSSDENVAAWRQKAQQYLN 61
L E A AVK ++E E A Y+ A L + N + Q +Y
Sbjct: 2 LEEMARKYAINAVKAEKEGNAEDAITNYKKAIEVLSQIVKNYPDSPTRLIYEQMINEYKR 61
Query: 62 RAEVLKDKI 70
R EVL+ +
Sbjct: 62 RIEVLEKQN 70
>gnl|CDD|239143 cd02680, MIT_calpain7_2, MIT: domain contained within Microtubule
Interacting and Trafficking molecules. This sub-family
of MIT domains is found in the nuclear thiol protease
PalBH. The molecular function of the MIT domain is
unclear.
Length = 75
Score = 32.3 bits (73), Expect = 0.031
Identities = 18/52 (34%), Positives = 28/52 (53%), Gaps = 1/52 (1%)
Query: 18 DEENQDEIAAYYYQAAARFLLETANSSSDENV-AAWRQKAQQYLNRAEVLKD 68
DE+ E A Y A + T+N + D+ + +Q A+Q L+RAE LK+
Sbjct: 17 DEKGNAEEAIELYTEAVELCINTSNETMDQALQTKLKQLARQALDRAEALKE 68
>gnl|CDD|239147 cd02684, MIT_2, MIT: domain contained within Microtubule
Interacting and Trafficking molecules. This sub-family
of MIT domains is found in proteins with an n-terminal
serine/threonine kinase domain. The molecular function
of the MIT domain is unclear.
Length = 75
Score = 32.1 bits (73), Expect = 0.040
Identities = 24/68 (35%), Positives = 31/68 (45%), Gaps = 3/68 (4%)
Query: 5 EEVINAAQMAVKFDEENQDEIAAY--YYQAAARFLLETANSSSDENVAAWRQKAQQYLNR 62
E+ I AVK D+ D AA Y A F+ + + A RQK QY++R
Sbjct: 4 EKAIALVVQAVKKDQR-GDAAAALSLYCSALQYFVPALHYETDAQRKEALRQKVLQYVSR 62
Query: 63 AEVLKDKI 70
AE LK I
Sbjct: 63 AEELKALI 70
>gnl|CDD|239142 cd02679, MIT_spastin, MIT: domain contained within Microtubule
Interacting and Trafficking molecules. This MIT domain
sub-family is found in the AAA protein spastin, a
probable ATPase involved in the assembly or function of
nuclear protein complexes; spastins might also be
involved in microtubule dynamics. The molecular
function of the MIT domain is unclear.
Length = 79
Score = 28.4 bits (64), Expect = 0.71
Identities = 14/59 (23%), Positives = 22/59 (37%), Gaps = 6/59 (10%)
Query: 13 MAVKFDEENQDEIAAYYYQAAARFLLETANSSSDENVAAWRQKAQQYLNRAEVLKDKIQ 71
A++ DE E A +Y+ R L E Q+ RA L+ K++
Sbjct: 14 KALRADEWGDKEQALAHYRKGLRELEEGIAVPV-----PSAGVGSQW-ERARRLQQKMK 66
>gnl|CDD|239140 cd02677, MIT_SNX15, MIT: domain contained within Microtubule
Interacting and Trafficking molecules. This MIT domain
sub-family is found in sorting nexin 15 and related
proteins. The molecular function of the MIT domain is
unclear.
Length = 75
Score = 28.1 bits (63), Expect = 1.1
Identities = 18/53 (33%), Positives = 28/53 (52%), Gaps = 1/53 (1%)
Query: 13 MAVKFDEENQDEIAAYYYQAAARFLLETANSSSD-ENVAAWRQKAQQYLNRAE 64
+A++ +EE E A +Y+A LL+ S E A ++K +YL RAE
Sbjct: 12 LALEKEEEGDYEAAFEFYRAGVDLLLKGVQGDSSPERREAVKRKIAEYLKRAE 64
>gnl|CDD|239146 cd02683, MIT_1, MIT: domain contained within Microtubule
Interacting and Trafficking molecules. This sub-family
of MIT domains is found in proteins with unknown
function, co-occuring with an as yet undescribed
domain. The molecular function of the MIT domain is
unclear.
Length = 77
Score = 27.8 bits (62), Expect = 1.4
Identities = 18/58 (31%), Positives = 31/58 (53%), Gaps = 1/58 (1%)
Query: 14 AVKFDEENQDEIAAYYYQAAARFLLETANSSSDENV-AAWRQKAQQYLNRAEVLKDKI 70
AV+ D+E + + A YQ L++ + DE RQK +Y++RAE +K ++
Sbjct: 13 AVELDQEGRFQEALVCYQEGIDLLMQVLKGTKDEAKKKNLRQKISEYMDRAEAIKKRL 70
>gnl|CDD|237022 PRK11915, PRK11915, glycerol-3-phosphate acyltransferase; Reviewed.
Length = 621
Score = 29.5 bits (66), Expect = 1.7
Identities = 17/46 (36%), Positives = 25/46 (54%)
Query: 33 AARFLLETANSSSDENVAAWRQKAQQYLNRAEVLKDKIQVMFLRNL 78
AA +L E A S + V AWR ++ + +VL D+ Q+ LR L
Sbjct: 66 AAGYLREMAASLDERAVQAWRGFSRWLMRAYDVLVDEDQITQLRKL 111
>gnl|CDD|130996 TIGR01941, nqrF, NADH:ubiquinone oxidoreductase,
Na(+)-translocating, F subunit. This model represents
the NqrF subunit of the six-protein, Na(+)-pumping
NADH-quinone reductase of a number of marine and
pathogenic Gram-negative bacteria. This oxidoreductase
complex functions primarily as a sodium ion pump
[Transport and binding proteins, Cations and iron
carrying compounds].
Length = 405
Score = 29.4 bits (66), Expect = 1.8
Identities = 24/100 (24%), Positives = 39/100 (39%), Gaps = 14/100 (14%)
Query: 118 NITFIDKDGKRREIKGKVGDNVLYLAHRYEIPMEGACEASLACTTCHVYVKHEYLDALPP 177
+IT D + + I G +L I + AC C C V V + LP
Sbjct: 31 DITIGINDDEEKSITVPAGGKLLNTLASNGIFISSACGGGGTCGQCRVRVVEGGGEILPT 90
Query: 178 AEEKEDDLLDLAPF----LKDNSRLGCQIILTKELEGIEV 213
+L+ F K+ RL CQ+ + +++ IE+
Sbjct: 91 ---------ELSHFSKREAKEGWRLSCQVKVKQDMS-IEI 120
>gnl|CDD|236887 PRK11259, solA, N-methyltryptophan oxidase; Provisional.
Length = 376
Score = 29.0 bits (66), Expect = 2.1
Identities = 16/60 (26%), Positives = 28/60 (46%), Gaps = 12/60 (20%)
Query: 2 GLPEEVINAAQMAVKFDEEN--QDEIAAYYYQAAARFLL-ETANSSSDENVAAWRQKAQQ 58
GLP EV++AA++ +F + IA ++ FL E A + A + A++
Sbjct: 111 GLPHEVLDAAEIRRRFPQFRLPDGYIA--LFEPDGGFLRPELA-------IKAHLRLARE 161
>gnl|CDD|220680 pfam10300, DUF3808, Protein of unknown function (DUF3808). This is
a family of proteins conserved from fungi to humans.
Members of this family also carry a TPR_2 domain
pfam07719 at their C-terminus.
Length = 446
Score = 28.8 bits (65), Expect = 2.8
Identities = 18/61 (29%), Positives = 24/61 (39%), Gaps = 5/61 (8%)
Query: 10 AAQMAVKFDEENQDEIAAYYYQAAARFLLETANSSSDENVAAWRQKAQQYLNRAEVLKDK 69
AA + +E++ A Y Y AAA LL E A +KA + L K
Sbjct: 307 AANYFLLLSDESKWSKALYAYLAAA-CLLMLG----REEEKAEGEKAVELFREVPTLVQK 361
Query: 70 I 70
I
Sbjct: 362 I 362
>gnl|CDD|222861 PHA02537, M, terminase endonuclease subunit; Provisional.
Length = 230
Score = 28.5 bits (64), Expect = 2.9
Identities = 17/50 (34%), Positives = 20/50 (40%), Gaps = 1/50 (2%)
Query: 23 DEIAAYYYQAAARFLLETANSSSDENVAAWRQKAQQYLNRAEVLKDKIQV 72
DE+ A Y+AA LL + Q A L RA L DK V
Sbjct: 165 DEVRAKLYKAAGYLLLRNEKGEPIGDAET-LQLALALLQRAFQLNDKCGV 213
>gnl|CDD|239141 cd02678, MIT_VPS4, MIT: domain contained within Microtubule
Interacting and Trafficking molecules. This sub-family
of MIT domains is found in intracellular protein
transport proteins of the AAA-ATPase family. The
molecular function of the MIT domain is unclear.
Length = 75
Score = 26.8 bits (60), Expect = 3.1
Identities = 17/62 (27%), Positives = 29/62 (46%), Gaps = 1/62 (1%)
Query: 8 INAAQMAVKFDE-ENQDEIAAYYYQAAARFLLETANSSSDENVAAWRQKAQQYLNRAEVL 66
I + A++ D N +E Y A F+ + ++ + R K +YL+RAE L
Sbjct: 7 IELVKKAIEEDNAGNYEEALRLYQHALEYFMHALKYEKNPKSKESIRAKCTEYLDRAEKL 66
Query: 67 KD 68
K+
Sbjct: 67 KE 68
>gnl|CDD|178988 PRK00364, groES, co-chaperonin GroES; Reviewed.
Length = 95
Score = 26.6 bits (60), Expect = 3.9
Identities = 8/20 (40%), Positives = 12/20 (60%)
Query: 122 IDKDGKRREIKGKVGDNVLY 141
+G+R + KVGD VL+
Sbjct: 48 RLDNGERVPLDVKVGDKVLF 67
>gnl|CDD|235068 PRK02769, PRK02769, histidine decarboxylase; Provisional.
Length = 380
Score = 28.1 bits (63), Expect = 4.6
Identities = 16/86 (18%), Positives = 30/86 (34%), Gaps = 13/86 (15%)
Query: 52 WRQKAQQYLNRAEVLKDKIQVMFLRNLLCKLP-PVVRPN------NVHRIHTS------V 98
RQ+ Q L+ A+ D++Q + VV P + TS +
Sbjct: 290 LRQRVQHCLDMAQYAVDRLQANGIPAWRNPNSITVVFPCPSERIWKKWHLATSGNQAHII 349
Query: 99 CTRHGEYEWQDPKSEDEIVNITFIDK 124
H + D ++ I ++ +K
Sbjct: 350 TMPHHNKQQIDSLIDELIFDLKNPNK 375
>gnl|CDD|234066 TIGR02940, anfO_nitrog, Fe-only nitrogenase accessory protein AnfO.
Members of this protein family, called Anf1 in
Rhodobacter capsulatus and AnfO in Azotobacter
vinelandii, are found only in species with the Fe-only
nitrogenase and are encoded immediately downstream of
the structural genes in the above named species.
Length = 214
Score = 27.5 bits (61), Expect = 6.0
Identities = 19/65 (29%), Positives = 27/65 (41%), Gaps = 1/65 (1%)
Query: 147 EIPMEGACEASLACTTCH-VYVKHEYLDALPPAEEKEDDLLDLAPFLKDNSRLGCQIILT 205
E E A EA ++ + + + L K D LDL L D+ RL + IL
Sbjct: 107 ERAKEAAKEARAERSSGRRGSDRFDIKEVLVGDVNKGDFRLDLEAILADDPRLNSRKILI 166
Query: 206 KELEG 210
L+G
Sbjct: 167 PVLKG 171
>gnl|CDD|197951 smart00883, Cpn10, Chaperonin 10 Kd subunit. The chaperonins are
'helper' molecules required for correct folding and
subsequent assembly of some proteins. These are required
for normal cell growth, and are stress-induced, acting
to stabilise or protect disassembled polypeptides under
heat-shock conditions. Type I chaperonins present in
eubacteria, mitochondria and chloroplasts require the
concerted action of 2 proteins, chaperonin 60 (cpn60)
and chaperonin 10 (cpn10). The 10 kDa chaperonin (cpn10
- or groES in bacteria) exists as a ring-shaped oligomer
of between six to eight identical subunits, while the 60
kDa chaperonin (cpn60 - or groEL in bacteria) forms a
structure comprising 2 stacked rings, each ring
containing 7 identical subunits. These ring structures
assemble by self-stimulation in the presence of
Mg2+-ATP. The central cavity of the cylindrical cpn60
tetradecamer provides as isolated environment for
protein folding whilst cpn-10 binds to cpn-60 and
synchronizes the release of the folded protein in an
Mg2+-ATP dependent manner. The binding of cpn10 to cpn60
inhibits the weak ATPase activity of cpn60.
Length = 93
Score = 26.2 bits (59), Expect = 6.1
Identities = 8/20 (40%), Positives = 13/20 (65%)
Query: 122 IDKDGKRREIKGKVGDNVLY 141
++G+R + KVGD VL+
Sbjct: 47 RLENGERVPLDVKVGDKVLF 66
>gnl|CDD|217969 pfam04216, FdhE, Protein involved in formate dehydrogenase
formation. The function of these proteins is unknown.
They may possibly be involved in the formation of
formate dehydrogenase.
Length = 283
Score = 27.3 bits (61), Expect = 6.3
Identities = 14/34 (41%), Positives = 16/34 (47%), Gaps = 4/34 (11%)
Query: 159 ACTTCHVYVKHEYLDALPPAEEKEDDL----LDL 188
C TCH Y+K + P E DDL LDL
Sbjct: 233 TCDTCHSYLKILDQEKDPDLEPVADDLASLALDL 266
>gnl|CDD|206695 cd04112, Rab26, Rab GTPase family 26 (Rab26). Rab26 subfamily.
First identified in rat pancreatic acinar cells, Rab26
is believed to play a role in recruiting mature granules
to the plasma membrane upon beta-adrenergic stimulation.
Rab26 belongs to the Rab functional group III, which are
considered key regulators of intracellular vesicle
transport during exocytosis. GTPase activating proteins
(GAPs) interact with GTP-bound Rab and accelerate the
hydrolysis of GTP to GDP. Guanine nucleotide exchange
factors (GEFs) interact with GDP-bound Rabs to promote
the formation of the GTP-bound state. Rabs are further
regulated by guanine nucleotide dissociation inhibitors
(GDIs), which facilitate Rab recycling by masking
C-terminal lipid binding and promoting cytosolic
localization. Most Rab GTPases contain a lipid
modification site at the C-terminus, with sequence
motifs CC, CXC, or CCX. Lipid binding is essential for
membrane attachment, a key feature of most Rab proteins.
Length = 191
Score = 26.8 bits (59), Expect = 7.7
Identities = 15/41 (36%), Positives = 21/41 (51%), Gaps = 1/41 (2%)
Query: 27 AYYYQAAARFLL-ETANSSSDENVAAWRQKAQQYLNRAEVL 66
AYY A A LL + N SS +N+ AW + +Y V+
Sbjct: 69 AYYRDAHALLLLYDVTNKSSFDNIRAWLTEILEYAQSDVVI 109
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
0.318 0.134 0.401
Gapped
Lambda K H
0.267 0.0876 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 12,139,611
Number of extensions: 1133716
Number of successful extensions: 1270
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1255
Number of HSP's successfully gapped: 40
Length of query: 232
Length of database: 10,937,602
Length adjustment: 94
Effective length of query: 138
Effective length of database: 6,768,326
Effective search space: 934028988
Effective search space used: 934028988
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 57 (25.5 bits)