RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy1087
(454 letters)
>gnl|CDD|238087 cd00155, RasGEF, Guanine nucleotide exchange factor for Ras-like
small GTPases. Small GTP-binding proteins of the Ras
superfamily function as molecular switches in
fundamental events such as signal transduction,
cytoskeleton dynamics and intracellular trafficking.
Guanine-nucleotide-exchange factors (GEFs) positively
regulate these GTP-binding proteins in response to a
variety of signals. GEFs catalyze the dissociation of
GDP from the inactive GTP-binding proteins. GTP can then
bind and induce structural changes that allow
interaction with effectors.
Length = 237
Score = 165 bits (420), Expect = 2e-48
Identities = 78/233 (33%), Positives = 125/233 (53%), Gaps = 31/233 (13%)
Query: 177 LLAFKSEHIAEQMTLLDSDLFIKIEIPE---VLAWIEQQNEEKSPNLTRARTR------- 226
L+ + +AEQ+TLLD +LF KIE E L + +N SPNL R R
Sbjct: 1 FLSLDPKELAEQLTLLDFELFRKIEPFELLGSLWSKKDKNIHLSPNLERFIERFNNLSNW 60
Query: 227 ----ILEQNEARDREKYVVKFIKIMKHLRKMNNFNSYLGLLSALDSAPIRRLEWQK-HIT 281
IL + R + + KFI++ KH R++NNFNS + ++SAL S+PI RL+ ++
Sbjct: 61 VASEILLCTNPKKRARLLSKFIQVAKHCRELNNFNSLMAIVSALSSSPISRLKKTWEVLS 120
Query: 282 EGLKEYCA----LIDSTSSFRAYRQALAE--TQPPCIPYIGLVLQDLTFVHIGNPHLLPC 335
LK+ L+D + +F+ YR+ L PPC+P++G+ L+DLTF+H GNP L
Sbjct: 121 SKLKKLFEELEELVDPSRNFKNYRKLLKSVGPNPPCVPFLGVYLKDLTFLHEGNPDFLE- 179
Query: 336 NELPPHVQYKNVINFSKRRQQFNIVQNMKRFRSGVHKFPRHDRIIEFFSNFDD 388
N++NF KRR+ I++ +++ +S ++ R + I+ F +
Sbjct: 180 ---------GNLVNFEKRRKIAEILREIRQLQSNSYELNRDEDILAFLWKLLE 223
Score = 53.0 bits (128), Expect = 6e-08
Identities = 23/63 (36%), Positives = 39/63 (61%), Gaps = 6/63 (9%)
Query: 377 DRIIEFFSNFDDFLSEEAMARTRILEQNEARDREKYVVKFIKIMKHLRKMNNFNSYLGLL 436
+R IE F+N ++++ E IL + R + + KFI++ KH R++NNFNS + ++
Sbjct: 48 ERFIERFNNLSNWVASE------ILLCTNPKKRARLLSKFIQVAKHCRELNNFNSLMAIV 101
Query: 437 SAL 439
SAL
Sbjct: 102 SAL 104
>gnl|CDD|216025 pfam00617, RasGEF, RasGEF domain. Guanine nucleotide exchange
factor for Ras-like small GTPases.
Length = 185
Score = 157 bits (399), Expect = 6e-46
Identities = 69/195 (35%), Positives = 110/195 (56%), Gaps = 27/195 (13%)
Query: 178 LAFKSEHIAEQMTLLDSDLFIKIEIPEVLA-WIEQQNEEKSPNLTRARTR---------- 226
L +A Q+TL++S+LF I+ E+L +++ + SPN+ +R
Sbjct: 1 LDLDPLELARQLTLIESELFSAIDPRELLDSAWGKKDSKLSPNIEAFISRFNQLSRWVAT 60
Query: 227 -ILEQNEARDREKYVVKFIKIMKHLRKMNNFNSYLGLLSALDSAPIRRLE--WQK---HI 280
IL + + + R K + KFIKI +H R++NNFNS + ++S L+S+PI RL+ W+
Sbjct: 61 EILSEEDLKKRAKVIKKFIKIAQHCRELNNFNSLMAIISGLNSSPISRLKKTWELVSKKY 120
Query: 281 TEGLKEYCALIDSTSSFRAYRQALAETQPPCIPYIGLVLQDLTFVHIGNPHLLPCNELPP 340
+ L+E L+ + +F+ YR+AL + PPCIP++GL L+DLTF+ GNP L
Sbjct: 121 KKLLEELEELMSPSKNFKNYREALKKANPPCIPFLGLYLKDLTFIEEGNPDFLD------ 174
Query: 341 HVQYKNVINFSKRRQ 355
+INF KRR+
Sbjct: 175 ----NGLINFEKRRK 185
Score = 52.2 bits (126), Expect = 5e-08
Identities = 22/73 (30%), Positives = 38/73 (52%), Gaps = 6/73 (8%)
Query: 367 RSGVHKFPRHDRIIEFFSNFDDFLSEEAMARTRILEQNEARDREKYVVKFIKIMKHLRKM 426
+ P + I F+ +++ E IL + + + R K + KFIKI +H R++
Sbjct: 35 KKDSKLSPNIEAFISRFNQLSRWVATE------ILSEEDLKKRAKVIKKFIKIAQHCREL 88
Query: 427 NNFNSYLGLLSAL 439
NNFNS + ++S L
Sbjct: 89 NNFNSLMAIISGL 101
>gnl|CDD|214539 smart00147, RasGEF, Guanine nucleotide exchange factor for Ras-like
small GTPases.
Length = 242
Score = 156 bits (397), Expect = 6e-45
Identities = 77/249 (30%), Positives = 124/249 (49%), Gaps = 33/249 (13%)
Query: 177 LLAFKSEHIAEQMTLLDSDLFIKIEIPEVLAWI---EQQNEEKSPNLTRARTR------- 226
LL + +AEQ+TLLD +LF KI+ E+L + + NL R
Sbjct: 1 LLLLDPKELAEQLTLLDFELFRKIDPSELLGSVWGKRSKKSPSPLNLEAFIRRFNEVSNW 60
Query: 227 ----ILEQNEARDREKYVVKFIKIMKHLRKMNNFNSYLGLLSALDSAPIRRLEWQK-HIT 281
IL+Q +DR + + KFI++ KH R++NNFNS + ++SAL S+PI RL+ +
Sbjct: 61 VATEILKQTTPKDRAELLSKFIQVAKHCRELNNFNSLMAIVSALSSSPISRLKKTWEKLP 120
Query: 282 EG----LKEYCALIDSTSSFRAYRQALAE-TQPPCIPYIGLVLQDLTFVHIGNPHLLPCN 336
+E L+ +++ YR+AL+ PPCIP++G++L+DLTF+ GNP L
Sbjct: 121 SKYKKLFEELEELLSPERNYKNYREALSSCNLPPCIPFLGVLLKDLTFIDEGNPDFLE-- 178
Query: 337 ELPPHVQYKNVINFSKRRQQFNIVQNMKRFRSGVHKFPRHDR-IIEFFSNFDDFLSEEA- 394
++NF KRRQ I++ +++ +S + + I D L EE
Sbjct: 179 --------NGLVNFEKRRQIAEILREIRQLQSQPYNLRPNRSDIQSLLQQLLDHLDEEEE 230
Query: 395 -MARTRILE 402
+ +E
Sbjct: 231 LYQLSLKIE 239
Score = 51.1 bits (123), Expect = 3e-07
Identities = 23/69 (33%), Positives = 41/69 (59%), Gaps = 6/69 (8%)
Query: 377 DRIIEFFSNFDDFLSEEAMARTRILEQNEARDREKYVVKFIKIMKHLRKMNNFNSYLGLL 436
+ I F+ ++++ E IL+Q +DR + + KFI++ KH R++NNFNS + ++
Sbjct: 48 EAFIRRFNEVSNWVATE------ILKQTTPKDRAELLSKFIQVAKHCRELNNFNSLMAIV 101
Query: 437 SALKTCFIY 445
SAL + I
Sbjct: 102 SALSSSPIS 110
>gnl|CDD|100121 cd06224, REM, Guanine nucleotide exchange factor for Ras-like
GTPases; N-terminal domain (RasGef_N), also called REM
domain (Ras exchanger motif). This domain is common in
nucleotide exchange factors for Ras-like small GTPases
and is typically found immediately N-terminal to the
RasGef (Cdc25-like) domain. REM contacts the GTPase and
is assumed to participate in the catalytic activity of
the exchange factor. Proteins with the REM domain
include Sos1 and Sos2, which relay signals from
tyrosine-kinase mediated signalling to Ras, RasGRP1-4,
RasGRF1,2, CNrasGEF, and RAP-specific nucleotide
exchange factors, to name a few.
Length = 122
Score = 46.6 bits (111), Expect = 2e-06
Identities = 23/103 (22%), Positives = 44/103 (42%), Gaps = 8/103 (7%)
Query: 58 YQDAFLTTFRTFKTPLEIIKKLIDRYHKFVSSS-------EVQKQRAARETFSFLVQVVS 110
+ FL T+R+F TP E+++KLI+RY + + + + + L V
Sbjct: 20 FVSTFLLTYRSFTTPTELLEKLIERYEIAPPENLEYNDWDKKKSKPIRLRVLNVLRTWVE 79
Query: 111 ELTVY-ELDDNLVKYLTDFIYQLLSSGHFKPARGLRVKLLAKY 152
D+ L++ L +F+ +L+ G ++ L K
Sbjct: 80 NYPYDFFDDEELLELLEEFLNRLVQEGALLQELKKLLRKLLKL 122
>gnl|CDD|216026 pfam00618, RasGEF_N, RasGEF N-terminal motif. A subset of guanine
nucleotide exchange factor for Ras-like small GTPases
appear to possess this motif/domain N-terminal to the
RasGef (Cdc25-like) domain.
Length = 94
Score = 35.8 bits (83), Expect = 0.006
Identities = 16/69 (23%), Positives = 31/69 (44%), Gaps = 3/69 (4%)
Query: 61 AFLTTFRTFKTPLEIIKKLIDRYHKFVSSSEVQKQRAARETFSFLVQVVSELTV-YELDD 119
FL T+R+F TP E+++ L++R+ + Q + L + + + D
Sbjct: 28 TFLLTYRSFTTPGELLELLLERFL--SPPLGLSYQEIRIRVLNVLRKWIENYNSDFVDDP 85
Query: 120 NLVKYLTDF 128
L+ L +F
Sbjct: 86 ELLSLLEEF 94
>gnl|CDD|214571 smart00229, RasGEFN, Guanine nucleotide exchange factor for
Ras-like GTPases; N-terminal motif. A subset of guanine
nucleotide exchange factor for Ras-like small GTPases
appear to possess this domain N-terminal to the RasGef
(Cdc25-like) domain. The recent crystal structureof Sos
shows that this domain is alpha-helical and plays a
"purely structural role" (Nature 394, 337-343).
Length = 127
Score = 35.4 bits (82), Expect = 0.013
Identities = 17/80 (21%), Positives = 32/80 (40%), Gaps = 4/80 (5%)
Query: 58 YQDAFLTTFRTFKTPLEIIKKLIDRYHKF----VSSSEVQKQRAARETFSFLVQVVSELT 113
+ + FL T+R+F T E+++ L+ RY+ +V +R + L V
Sbjct: 28 FVETFLLTYRSFITTQELLQLLLYRYNAIPPESWVEEKVNPRRVKNRVLNILRTWVENYW 87
Query: 114 VYELDDNLVKYLTDFIYQLL 133
DD + +L+
Sbjct: 88 EDFEDDPKLISFLLEFLELV 107
>gnl|CDD|235600 PRK05771, PRK05771, V-type ATP synthase subunit I; Validated.
Length = 646
Score = 33.0 bits (76), Expect = 0.34
Identities = 31/200 (15%), Positives = 62/200 (31%), Gaps = 25/200 (12%)
Query: 63 LTTFRTFKTPLEIIKKLIDRYHKFVSSSEVQKQRAARETFSFLVQVVSELT--------- 113
L R++ L +++ + S E+ K E + + + EL
Sbjct: 59 LDKLRSYLPKLNPLREEKKKV-SVKSLEELIKD--VEEELEKIEKEIKELEEEISELENE 115
Query: 114 --VYELDDNLVKYLTDF---IYQLLSSGHFKPARGLRVKLLAKYDCKNNESVKNEILSSL 168
E + ++ +F + LL + G V + K V+N S
Sbjct: 116 IKELEQEIERLEPWGNFDLDLSLLLGFKYVSVFVG-TVPEDKLEELKLESDVENVEYIS- 173
Query: 169 NVYTTHYTLLAFKSEHIAEQMTLLDSDLFIKIEIP------EVLAWIEQQNEEKSPNLTR 222
Y ++ E E L F ++E+ E++ I+++ EE
Sbjct: 174 TDKGYVYVVVVVLKELSDEVEEELKKLGFERLELEEEGTPSELIREIKEELEEIEKERES 233
Query: 223 ARTRILEQNEARDREKYVVK 242
+ E + E +
Sbjct: 234 LLEELKELAKKYLEELLALY 253
>gnl|CDD|233172 TIGR00891, 2A0112, putative sialic acid transporter. [Transport
and binding proteins, Carbohydrates, organic alcohols,
and acids].
Length = 405
Score = 31.0 bits (70), Expect = 1.3
Identities = 16/68 (23%), Positives = 26/68 (38%), Gaps = 3/68 (4%)
Query: 196 LFIKIEIPEVLAWIEQQNEEKSPNLTRARTRILEQNEARDREKYVVKFIKIMKHLRKMNN 255
L+++ IPE W E+ + L R IL E R + +++ K
Sbjct: 182 LWLRKNIPEAEDWKEKHAGKA---LVRTMVDILYGGEHRIANIVMTLAAAMVQSAGKRWP 238
Query: 256 FNSYLGLL 263
YL +L
Sbjct: 239 TFVYLVVL 246
>gnl|CDD|180663 PRK06704, PRK06704, RNA polymerase factor sigma-70; Validated.
Length = 228
Score = 29.6 bits (66), Expect = 2.7
Identities = 29/108 (26%), Positives = 45/108 (41%), Gaps = 23/108 (21%)
Query: 7 HSTLNQVFQSVANLIKFCDDYFLYNNNDEVNEELAKECVAQVEQADKEKH-----LYQDA 61
HS +N + + L ++C FL N + E+LA+E V +V Q K +Y+ A
Sbjct: 17 HSNINFLIEQYGELKRYC--TFLTKNKWD-GEDLAQETVCKVLQKYSNKDICMTLVYKIA 73
Query: 62 F---------------LTTFRTFKTPLEIIKKLIDRYHKFVSSSEVQK 94
+ TF+ P E I L + K +SS VQ+
Sbjct: 74 RNRWLDQIKSKSVHEKIRDQITFEEPHEKIADLHEMVGKVLSSLNVQQ 121
>gnl|CDD|216834 pfam01992, vATP-synt_AC39, ATP synthase (C/AC39) subunit. This
family includes the AC39 subunit from vacuolar ATP
synthase, and the C subunit from archaebacterial ATP
synthase. The family also includes subunit C from the
Sodium transporting ATP synthase from Enterococcus
hirae.
Length = 335
Score = 30.0 bits (68), Expect = 2.7
Identities = 14/53 (26%), Positives = 24/53 (45%), Gaps = 1/53 (1%)
Query: 104 FLVQVVSELTVYELDDNLVKYLTDFIYQLLSSGHFKPARGLRVKLLAKYDCKN 156
L ++ S+ +V ++ L + L Y+LL R L LL ++D N
Sbjct: 42 ELAELGSKFSVSLIEKALNRNLAK-TYELLRRIAPGSLRKLIDLLLKRWDIWN 93
>gnl|CDD|233701 TIGR02055, APS_reductase, thioredoxin-dependent adenylylsulfate APS
reductase. This model describes recently identified
adenosine 5'-phosphosulfate (APS) reductase activity
found in sulfate-assimilatory prokaryotes, thus
separating it from the traditionally described
phosphoadenosine 5'-phosphosulfate (PAPS) reductases
found in bacteria and fungi. Homologous to PAPS
reductase in enterobacteria, cyanobacteria, and yeast,
APS reductase here clusters with, and demonstrates
greater homology to plant APS reductase. Additionally,
the presence of two conserved C-terminal motifs
(CCXXRKXXPL & SXGCXXCT) distinguishes APS substrate
specificity and serves as a FeS cluster [Central
intermediary metabolism, Sulfur metabolism].
Length = 191
Score = 29.0 bits (65), Expect = 3.5
Identities = 13/33 (39%), Positives = 17/33 (51%), Gaps = 2/33 (6%)
Query: 207 AWIEQQNEEKSPNLTRARTRILEQNEARDREKY 239
AWI ++SP TRA+ LE +EA K
Sbjct: 96 AWITGLRRDQSP--TRAQAPFLEIDEAFGLVKI 126
>gnl|CDD|236383 PRK09120, PRK09120, p-hydroxycinnamoyl CoA hydratase/lyase;
Validated.
Length = 275
Score = 29.2 bits (66), Expect = 3.8
Identities = 14/48 (29%), Positives = 23/48 (47%), Gaps = 4/48 (8%)
Query: 198 IKIEIPEVLAWIEQQNEEK----SPNLTRARTRILEQNEARDREKYVV 241
+K+E+ + +AW+ EK SP L R +L+ E D +V
Sbjct: 10 VKVEVEDGIAWVTLNRPEKRNAMSPTLNREMIDVLDALEFDDDAGVLV 57
>gnl|CDD|216747 pfam01865, PhoU_div, Protein of unknown function DUF47. This
family includes prokaryotic proteins of unknown
function, as well as a protein annotated as the pit
accessory protein from Sinorhizobium meliloti. However,
the function of this protein is also unknown (Pit
stands for Phosphate transport). It is probably
distantly related to pfam01895 (personal obs:Yeats C).
Length = 214
Score = 28.8 bits (65), Expect = 4.1
Identities = 22/78 (28%), Positives = 33/78 (42%), Gaps = 8/78 (10%)
Query: 10 LNQVFQSVANLIKFCDDYFLYNNNDEVNEELAKECVAQVEQADKEK-----HLYQDAFLT 64
L +V ++V LI+ + + E EEL KE +AD+ K +L AFL
Sbjct: 17 LEKVSETVMKLIELFEAL--IRGDYERVEELLKEISELEREADEIKREIRLNLTSGAFLP 74
Query: 65 TFRT-FKTPLEIIKKLID 81
R +E K+ D
Sbjct: 75 VDRGDLLELIESQDKIAD 92
>gnl|CDD|224866 COG1955, FlaJ, Archaeal flagella assembly protein J [Cell motility
and secretion / Intracellular trafficking and
secretion].
Length = 527
Score = 29.2 bits (66), Expect = 5.5
Identities = 26/96 (27%), Positives = 37/96 (38%), Gaps = 4/96 (4%)
Query: 25 DDYFLYNNNDEVNEELAKECVAQVEQADKEKHLYQDAFLTTFRTFKTPLEIIKKLIDRYH 84
DD F + E L KE DK + +A F KTP EI+ +DR
Sbjct: 72 DDIFRILSRKEEYGPLRKEFRKIYNLVDKWGYSLAEAC--RFIAKKTPSEILADFLDRLA 129
Query: 85 KFVSSSEVQKQRAARETFSFL--VQVVSELTVYELD 118
+ S E K+ RE + + + E + LD
Sbjct: 130 YALDSGEDLKEFLEREQDTTMDEYETEYERALESLD 165
>gnl|CDD|213621 TIGR01434, glu_cys_ligase, glutamate--cysteine ligase. Alternate
name: gamma-glutamylcysteine synthetase. This model
represents glutamate--cysteine ligase, and enzyme in the
biosynthesis of glutathione (GSH). GSH is one of several
low molecular weight cysteine derivatives that can serve
to protect against oxidative damage and participate in a
biosynthetic or detoxification reactions [Biosynthesis
of cofactors, prosthetic groups, and carriers,
Glutathione and analogs].
Length = 512
Score = 29.1 bits (65), Expect = 5.7
Identities = 14/68 (20%), Positives = 24/68 (35%), Gaps = 5/68 (7%)
Query: 241 VKFIKIMKHLRKMNNFNSYLGLLSALDSAPIRRLEWQKHITEGLKEYCALIDSTSSFRAY 300
+ +++ RK L L ++A K + LK +DS AY
Sbjct: 370 DNWNRVILEGRKPG-----LTLGIGCETAQFPLPVVGKDLFRDLKRVAQTLDSIRGGEAY 424
Query: 301 RQALAETQ 308
++A E
Sbjct: 425 QKACDELV 432
>gnl|CDD|237030 PRK12270, kgd, alpha-ketoglutarate decarboxylase; Reviewed.
Length = 1228
Score = 28.7 bits (65), Expect = 7.9
Identities = 16/48 (33%), Positives = 23/48 (47%), Gaps = 7/48 (14%)
Query: 200 IEIPEVLAWIEQQNEEKSPNLTRA-RTRILEQ-NEARDRE-----KYV 240
I+ PE W++++ E TR + RIL + N A E KYV
Sbjct: 470 IQDPEQRRWLQERVERPHEKPTREEQKRILSKLNAAEAFETFLQTKYV 517
>gnl|CDD|234768 PRK00450, dapF, diaminopimelate epimerase; Provisional.
Length = 274
Score = 28.2 bits (64), Expect = 8.6
Identities = 12/38 (31%), Positives = 16/38 (42%), Gaps = 1/38 (2%)
Query: 296 SFRAYRQALAETQPPCIPY-IGLVLQDLTFVHIGNPHL 332
F LAE Y +G ++T V +GNPH
Sbjct: 122 RFEPAEIPLAEEDVIEKEYILGGQTVEVTAVSMGNPHA 159
>gnl|CDD|191413 pfam05970, PIF1, PIF1-like helicase. This family includes
homologues of the PIF1 helicase, which inhibits
telomerase activity and is cell cycle regulated. This
family includes a large number of largely
uncharacterized plant proteins. This family includes a
P-loop motif that is involved in nucleotide binding.
Length = 364
Score = 28.5 bits (64), Expect = 8.6
Identities = 8/37 (21%), Positives = 17/37 (45%)
Query: 2 LHSIVHSTLNQVFQSVANLIKFCDDYFLYNNNDEVNE 38
+ +IV + Q+ + C+ L N++V+E
Sbjct: 243 IEAIVSEVYPDIVQNSTDPNYLCERAILCPTNEDVDE 279
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
0.323 0.136 0.392
Gapped
Lambda K H
0.267 0.0734 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 23,103,707
Number of extensions: 2277569
Number of successful extensions: 2326
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2314
Number of HSP's successfully gapped: 46
Length of query: 454
Length of database: 10,937,602
Length adjustment: 100
Effective length of query: 354
Effective length of database: 6,502,202
Effective search space: 2301779508
Effective search space used: 2301779508
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 61 (27.3 bits)