RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 032233
(144 letters)
>gnl|CDD|215639 PLN03226, PLN03226, serine hydroxymethyltransferase; Provisional.
Length = 475
Score = 251 bits (642), Expect = 4e-83
Identities = 82/143 (57%), Positives = 104/143 (72%), Gaps = 1/143 (0%)
Query: 1 MGYELVSGGTENHLVLVNLKNKGIDGSRVEKVLEAVHIAANKNTVPGDVSAMVPGGIRMG 60
GY+LV+GGT+NHLVL +L+ G+ GSRVEKVL+ HI NKN VPGD SA+VPGG+R+G
Sbjct: 333 KGYKLVTGGTDNHLVLWDLRPLGLTGSRVEKVLDLAHITLNKNAVPGDSSALVPGGVRIG 392
Query: 61 TPALTSRGFVEEDFAKVAYFFDAAVKLTVKIKSETQGTKLKDFVATTQSANFQSEIAKRC 120
TPA+TSRG VE+DF KVA F AV + +KI+ E G KLKDF +S +F +I
Sbjct: 393 TPAMTSRGLVEKDFEKVAEFLHRAVTIALKIQKEH-GKKLKDFKKGLESNDFSKDIEALR 451
Query: 121 HDVEEYAKQFPTIGFEKETMKYK 143
+VEE+A FP GF+KE+MKYK
Sbjct: 452 AEVEEFATSFPMPGFDKESMKYK 474
>gnl|CDD|240264 PTZ00094, PTZ00094, serine hydroxymethyltransferase; Provisional.
Length = 452
Score = 175 bits (446), Expect = 5e-54
Identities = 70/134 (52%), Positives = 94/134 (70%), Gaps = 4/134 (2%)
Query: 2 GYELVSGGTENHLVLVNLKNKGIDGSRVEKVLEAVHIAANKNTVPGDVSAMVPGGIRMGT 61
GY+LV+GGT+NHLVLV+L+ GI GS++EK+L+AV+I+ NKNT+PGD SA+ P G+R+GT
Sbjct: 323 GYDLVTGGTDNHLVLVDLRPFGITGSKMEKLLDAVNISVNKNTIPGDKSALNPSGVRLGT 382
Query: 62 PALTSRGFVEEDFAKVAYFFDAAVKLTVKIKSETQGTKLKDFVATTQSANFQSEIAKRCH 121
PALT+RG E+DF VA F D AVKL +I+ + G KL DF + E+ K
Sbjct: 383 PALTTRGAKEKDFKFVADFLDRAVKLAQEIQKQV-GKKLVDFKK---ALEKNPELQKLRQ 438
Query: 122 DVEEYAKQFPTIGF 135
+V E+A QFP G
Sbjct: 439 EVVEFASQFPFPGI 452
>gnl|CDD|189558 pfam00464, SHMT, Serine hydroxymethyltransferase.
Length = 380
Score = 139 bits (353), Expect = 6e-41
Identities = 52/82 (63%), Positives = 63/82 (76%), Gaps = 1/82 (1%)
Query: 1 MGYELVSGGTENHLVLVNLKNKGIDGSRVEKVLEAVHIAANKNTVPGD-VSAMVPGGIRM 59
GY+LVSGGT+NHLVLV+L+ KG+DG R EK LE +I ANKNT+PGD S V G+R+
Sbjct: 299 RGYKLVSGGTDNHLVLVDLRPKGLDGKRAEKALERANITANKNTIPGDPKSPFVTSGLRL 358
Query: 60 GTPALTSRGFVEEDFAKVAYFF 81
GTPALTSRGF E DF +VA +
Sbjct: 359 GTPALTSRGFGEADFEEVAGYI 380
>gnl|CDD|99733 cd00378, SHMT, Serine-glycine hydroxymethyltransferase (SHMT). This
family belongs to pyridoxal phosphate (PLP)-dependent
aspartate aminotransferase superfamily (fold I). SHMT
carries out interconversion of serine and glycine; it
catalyzes the transfer of hydroxymethyl group of N5,
N10-methylene tetrahydrofolate to glycine resulting in
the formation of serine and tetrahydrofolate. Both
eukaryotic and prokaryotic SHMT enzymes form tight
obligate homodimers; the mammalian enzyme forms a
homotetramer comprising four pyridoxal phosphate-bound
active sites.
Length = 402
Score = 133 bits (338), Expect = 2e-38
Identities = 48/105 (45%), Positives = 66/105 (62%), Gaps = 4/105 (3%)
Query: 2 GYELVSGGTENHLVLVNLKNKGIDGSRVEKVLEAVHIAANKNTVPGDVS-AMVPGGIRMG 60
G+++VSGGT+NHLVLV+L+ KGI G E LE I NKNT+P D S VP GIR+G
Sbjct: 299 GFKVVSGGTDNHLVLVDLRPKGITGKAAEDALEEAGITVNKNTLPWDPSSPFVPSGIRIG 358
Query: 61 TPALTSRGFVEEDFAKVAYFFDAAVKLTVKIKSETQGTKLKDFVA 105
TPA+T+RG EE+ ++A F A+K + +++ VA
Sbjct: 359 TPAMTTRGMGEEEMEEIADFIARALKDA---EDVAVAEEVRKEVA 400
>gnl|CDD|234571 PRK00011, glyA, serine hydroxymethyltransferase; Reviewed.
Length = 416
Score = 129 bits (326), Expect = 2e-36
Identities = 47/135 (34%), Positives = 71/135 (52%), Gaps = 23/135 (17%)
Query: 2 GYELVSGGTENHLVLVNLKNKGIDGSRVEKVLEAVHIAANKNTVPGDV-SAMVPGGIRMG 60
G+ +VSGGT+NHLVLV+L++KG+ G E LE +I NKN VP D S V GIR+G
Sbjct: 303 GFRVVSGGTDNHLVLVDLRSKGLTGKEAEAALEEANITVNKNAVPFDPRSPFVTSGIRIG 362
Query: 61 TPALTSRGFVEEDFAKVAYFFDAAVKLTVKIKSETQGTKLKDFVATTQSANFQSEIAKRC 120
TPA+T+RGF E + ++A + + + ++ I +
Sbjct: 363 TPAITTRGFKEAEMKEIAELIADVLD----------------------NPDDEAVIEEVK 400
Query: 121 HDVEEYAKQFPTIGF 135
+V+E K+FP +
Sbjct: 401 EEVKELCKRFPLYKY 415
>gnl|CDD|223190 COG0112, GlyA, Glycine/serine hydroxymethyltransferase [Amino acid
transport and metabolism].
Length = 413
Score = 122 bits (309), Expect = 4e-34
Identities = 41/105 (39%), Positives = 64/105 (60%), Gaps = 2/105 (1%)
Query: 2 GYELVSGGTENHLVLVNLKNKGIDGSRVEKVLEAVHIAANKNTVPGD-VSAMVPGGIRMG 60
G+++VSGGT+NHLVLV+L++KG+ G + E LE I NKN +P D S V GIR+G
Sbjct: 304 GFKVVSGGTDNHLVLVDLRSKGLTGKKAEAALERAGITVNKNAIPFDPESPFVTSGIRIG 363
Query: 61 TPALTSRGFVEEDFAKVAYFFDAAVKLTVKIKSETQGTKLKDFVA 105
TPA+T+RGF E + ++A + + +E + ++ +
Sbjct: 364 TPAVTTRGFGEAEMEEIADLIADVLDGLKDVPAEVKE-EVAELCR 407
>gnl|CDD|215153 PLN02271, PLN02271, serine hydroxymethyltransferase.
Length = 586
Score = 109 bits (273), Expect = 1e-28
Identities = 53/132 (40%), Positives = 77/132 (58%), Gaps = 4/132 (3%)
Query: 5 LVSGGTENHLVLVNLKNKGIDGSRVEKVLEAVHIAANKNTVPGDVSAMVPGGIRMGTPAL 64
LV+GGT+NHL+L +L G+ G EKV E HI NK + GD + PGG+R+GTPA+
Sbjct: 458 LVTGGTDNHLLLWDLTTLGLTGKNYEKVCEMCHITLNKTAIFGDNGTISPGGVRIGTPAM 517
Query: 65 TSRGFVEEDFAKVAYFFDAAVKLTVKIKSETQGTKLKDFVATTQSANFQSEIAKRCHDVE 124
TSRG +E DF +A F A ++ ++ E G K+F+ Q+ +I + + VE
Sbjct: 518 TSRGCLESDFETIADFLLRAAQIASAVQRE-HGKLQKEFLKGLQNNK---DIVELRNRVE 573
Query: 125 EYAKQFPTIGFE 136
+A QF GF+
Sbjct: 574 AFASQFAMPGFD 585
>gnl|CDD|237280 PRK13034, PRK13034, serine hydroxymethyltransferase; Reviewed.
Length = 416
Score = 106 bits (267), Expect = 3e-28
Identities = 45/78 (57%), Positives = 57/78 (73%), Gaps = 1/78 (1%)
Query: 2 GYELVSGGTENHLVLVNLKNKGIDGSRVEKVLEAVHIAANKNTVPGDV-SAMVPGGIRMG 60
GY+LVSGGT+NHL+LV+L+ KG+ G E+ LE I NKNTVPGD S V GIR+G
Sbjct: 306 GYDLVSGGTDNHLLLVDLRPKGLSGKDAEQALERAGITVNKNTVPGDTESPFVTSGIRIG 365
Query: 61 TPALTSRGFVEEDFAKVA 78
TPA T+RGF E +F ++A
Sbjct: 366 TPAGTTRGFGEAEFREIA 383
>gnl|CDD|184161 PRK13580, PRK13580, serine hydroxymethyltransferase; Provisional.
Length = 493
Score = 84.3 bits (209), Expect = 7e-20
Identities = 43/132 (32%), Positives = 67/132 (50%), Gaps = 9/132 (6%)
Query: 2 GYELVSGGTENHLVLVNLKNKGIDGSRVEKVLEAVHIAANKNTVPGDVS-AMVPGGIRMG 60
G LV+GGT+NHLVL+++ + G+ G + E L I N+N++P D + A GIR+G
Sbjct: 359 GARLVTGGTDNHLVLIDVTSFGLTGRQAESALLDAGIVTNRNSIPSDPNGAWYTSGIRLG 418
Query: 61 TPALTSRGFVEEDFAKVAYFFDAAVKLTVKIKSETQGTKLKDFVATTQSANFQSEIAKRC 120
TPALT+ G ++ +VA +L VK+ S T + + +A+
Sbjct: 419 TPALTTLGMGSDEMDEVA-------ELIVKVLSNTTPGTTAEGAPSKAKYELDEGVAQEV 471
Query: 121 HD-VEEYAKQFP 131
V E +FP
Sbjct: 472 RARVAELLARFP 483
>gnl|CDD|206723 cd04158, ARD1, (ADP-ribosylation factor domain protein 1 (ARD1).
ARD1 (ADP-ribosylation factor domain protein 1) is an
unusual member of the Arf family. In addition to the
C-terminal Arf domain, ARD1 has an additional 46-kDa
N-terminal domain that contains a RING finger domain,
two predicted B-Boxes, and a coiled-coil protein
interaction motif. This domain belongs to the TRIM
(tripartite motif) or RBCC (RING, B-Box, coiled-coil)
family. Like most Arfs, the ARD1 Arf domain lacks
detectable GTPase activity. However, unlike most Arfs,
the full-length ARD1 protein has significant GTPase
activity due to the GAP (GTPase-activating protein)
activity exhibited by the 46-kDa N-terminal domain. The
GAP domain of ARD1 is specific for its own Arf domain
and does not bind other Arfs. The rate of GDP
dissociation from the ARD1 Arf domain is slowed by the
adjacent 15 amino acids, which act as a GDI
(GDP-dissociation inhibitor) domain. ARD1 is
ubiquitously expressed in cells and localizes to the
Golgi and to the lysosomal membrane. Two Tyr-based
motifs in the Arf domain are responsible for Golgi
localization, while the GAP domain controls lysosomal
localization.
Length = 169
Score = 28.1 bits (62), Expect = 1.4
Identities = 10/21 (47%), Positives = 16/21 (76%)
Query: 124 EEYAKQFPTIGFEKETMKYKS 144
+E+ + PTIGF ET++YK+
Sbjct: 22 DEFMQPIPTIGFNVETVEYKN 42
>gnl|CDD|178782 PLN03244, PLN03244, alpha-amylase; Provisional.
Length = 872
Score = 28.4 bits (63), Expect = 1.6
Identities = 11/35 (31%), Positives = 15/35 (42%)
Query: 107 TQSANFQSEIAKRCHDVEEYAKQFPTIGFEKETMK 141
S NF +A RC D+ E F+K+ M
Sbjct: 723 MPSNNFSFSLANRCWDLLENEVHHHLFSFDKDLMD 757
>gnl|CDD|107029 PHA01351, PHA01351, putative minor structural protein.
Length = 1070
Score = 28.0 bits (62), Expect = 2.1
Identities = 19/75 (25%), Positives = 25/75 (33%), Gaps = 18/75 (24%)
Query: 64 LTSRGFVEEDFAKVAYFFDAAVKLTVKIKSETQGTKLKDFVATTQSANFQSEIAKRCHDV 123
L GF + + Y E Q +L F N +S K +
Sbjct: 554 LKHLGFDSAIISALIY--------------ENQVEQLIKFQLN----NIESLAKKGYLSL 595
Query: 124 EEYAKQFPTIGFEKE 138
+E KQF IG KE
Sbjct: 596 DEIKKQFKAIGIIKE 610
>gnl|CDD|235299 PRK04443, PRK04443, acetyl-lysine deacetylase; Provisional.
Length = 348
Score = 27.2 bits (61), Expect = 3.0
Identities = 24/70 (34%), Positives = 30/70 (42%), Gaps = 15/70 (21%)
Query: 23 GIDGSRVEKVLEAVHIAANKNTVPGDVSAMVPGGIRMGTPALTSRGFVEEDFAK--VAYF 80
G G VL HI +TVPGD+ V G+ G RG V+ AK +A F
Sbjct: 53 GPAGDGPPLVLLLGHI----DTVPGDIPVRVEDGVLWG------RGSVD---AKGPLAAF 99
Query: 81 FDAAVKLTVK 90
AA +L
Sbjct: 100 AAAAARLEAL 109
>gnl|CDD|232937 TIGR00358, 3_prime_RNase, VacB and RNase II family 3'-5'
exoribonucleases. This model is defined to identify a
pair of paralogous 3-prime exoribonucleases in E. coli,
plus the set of proteins apparently orthologous to one
or the other in other eubacteria. VacB was characterized
originally as required for the expression of virulence
genes, but is now recognized as the exoribonuclease
RNase R (Rnr). Its paralog in E. coli and H. influenzae
is designated exoribonuclease II (Rnb). Both are
involved in the degradation of mRNA, and consequently
have strong pleiotropic effects that may be difficult to
disentangle. Both these proteins share domain-level
similarity (RNB, S1) with a considerable number of other
proteins, and full-length similarity scoring below the
trusted cutoff to proteins associated with various
phenotypes but uncertain biochemistry; it may be that
these latter proteins are also 3-prime exoribonucleases
[Transcription, Degradation of RNA].
Length = 654
Score = 27.4 bits (61), Expect = 3.0
Identities = 9/62 (14%), Positives = 22/62 (35%)
Query: 43 NTVPGDVSAMVPGGIRMGTPALTSRGFVEEDFAKVAYFFDAAVKLTVKIKSETQGTKLKD 102
G++S++ G+ + G + Y+ K+ + K + ++ D
Sbjct: 574 TEFSGEISSVTRFGMFVRLDDNGIDGLIHISTLHNDYYVFDQEKMALIGKGTGKVYRIGD 633
Query: 103 FV 104
V
Sbjct: 634 RV 635
>gnl|CDD|219437 pfam07506, RepB, RepB plasmid partitioning protein. This family
includes proteins with sequence similarity to the RepB
partitioning protein of the large Ti (tumour-inducing)
plasmids of Agrobacterium tumefaciens.
Length = 185
Score = 26.7 bits (59), Expect = 3.6
Identities = 11/54 (20%), Positives = 19/54 (35%), Gaps = 5/54 (9%)
Query: 11 ENHLVLVNLKNKGIDGSRVEKVLEAVHIAANKNTVPGDVSAMVPGGIRMGTPAL 64
E L +G+ + + + + TV V+ +P GI AL
Sbjct: 9 ERARFAARLLERGVPRAEIAA-----ALGLDPQTVSKMVARAIPEGICPEEEAL 57
>gnl|CDD|221485 pfam12246, MKT1_C, Temperature dependent protein affecting M2 dsRNA
replication. This domain family is found in eukaryotes,
and is typically between 231 and 255 amino acids in
length. There is a single completely conserved residue P
that may be functionally important. MKT1 is required for
maintenance of K2 toxin above 30 degrees C in strains
with the L-A-HN variant of the L-A double-stranded RNA
virus of Saccharomyces cerevisiae. MKT1 is a 93 kDa
protein with serine-rich regions and the retroviral
protease signature, DTG. This family is the C terminal
region of MKT1.
Length = 243
Score = 26.9 bits (60), Expect = 4.3
Identities = 11/41 (26%), Positives = 18/41 (43%), Gaps = 2/41 (4%)
Query: 70 VEEDFAKVAYFFDAAVKLTVKIKSE--TQGTKLKDFVATTQ 108
++ED A+ F+DA K ++ E LK F +
Sbjct: 197 LKEDLARAFQFWDALYKAVQELAEEDLISADDLKLFEEADE 237
>gnl|CDD|206717 cd04150, Arf1_5_like, ADP-ribosylation factor-1 (Arf1) and
ADP-ribosylation factor-5 (Arf5). The Arf1-Arf5-like
subfamily contains Arf1, Arf2, Arf3, Arf4, Arf5, and
related proteins. Arfs1-5 are soluble proteins that are
crucial for assembling coat proteins during vesicle
formation. Each contains an N-terminal myristoylated
amphipathic helix that is folded into the protein in the
GDP-bound state. GDP/GTP exchange exposes the helix,
which anchors to the membrane. Following GTP hydrolysis,
the helix dissociates from the membrane and folds back
into the protein. A general feature of Arf1-5 signaling
may be the cooperation of two Arfs at the same site.
Arfs1-5 are generally considered to be interchangeable
in function and location, but some specific functions
have been assigned. Arf1 localizes to the
early/cis-Golgi, where it is activated by GBF1 and
recruits the coat protein COPI. It also localizes to the
trans-Golgi network (TGN), where it is activated by
BIG1/BIG2 and recruits the AP1, AP3, AP4, and GGA
proteins. Humans, but not rodents and other lower
eukaryotes, lack Arf2. Human Arf3 shares 96% sequence
identity with Arf1 and is believed to generally function
interchangeably with Arf1. Human Arf4 in the activated
(GTP-bound) state has been shown to interact with the
cytoplasmic domain of epidermal growth factor receptor
(EGFR) and mediate the EGF-dependent activation of
phospholipase D2 (PLD2), leading to activation of the
activator protein 1 (AP-1) transcription factor. Arf4
has also been shown to recognize the C-terminal sorting
signal of rhodopsin and regulate its incorporation into
specialized post-Golgi rhodopsin transport carriers
(RTCs). There is some evidence that Arf5 functions at
the early-Golgi and the trans-Golgi to affect
Golgi-associated alpha-adaptin homology Arf-binding
proteins (GGAs).
Length = 159
Score = 26.2 bits (58), Expect = 5.5
Identities = 9/13 (69%), Positives = 11/13 (84%)
Query: 131 PTIGFEKETMKYK 143
PTIGF ET++YK
Sbjct: 30 PTIGFNVETVEYK 42
>gnl|CDD|179794 PRK04223, rpl22p, 50S ribosomal protein L22P; Reviewed.
Length = 153
Score = 26.0 bits (58), Expect = 6.0
Identities = 11/25 (44%), Positives = 15/25 (60%), Gaps = 4/25 (16%)
Query: 18 NLKNKGIDGSRVEKVLEAVHIAANK 42
N + KG+D + L VHIAA+K
Sbjct: 100 NAEYKGLDTEK----LVIVHIAAHK 120
>gnl|CDD|206644 cd00878, Arf_Arl, ADP-ribosylation factor(Arf)/Arf-like (Arl) small
GTPases. Arf (ADP-ribosylation factor)/Arl (Arf-like)
small GTPases. Arf proteins are activators of
phospholipase D isoforms. Unlike Ras proteins they lack
cysteine residues at their C-termini and therefore are
unlikely to be prenylated. Arfs are N-terminally
myristoylated. Members of the Arf family are regulators
of vesicle formation in intracellular traffic that
interact reversibly with membranes of the secretory and
endocytic compartments in a GTP-dependent manner. They
depart from other small GTP-binding proteins by a unique
structural device, interswitch toggle, that implements
front-back communication from N-terminus to the
nucleotide binding site. Arf-like (Arl) proteins are
close relatives of the Arf, but only Arl1 has been shown
to function in membrane traffic like the Arf proteins.
Arl2 has an unrelated function in the folding of native
tubulin, and Arl4 may function in the nucleus. Most
other Arf family proteins are so far relatively poorly
characterized. Thus, despite their significant sequence
homologies, Arf family proteins may regulate unrelated
functions.
Length = 158
Score = 25.6 bits (57), Expect = 7.5
Identities = 9/13 (69%), Positives = 11/13 (84%)
Query: 131 PTIGFEKETMKYK 143
PTIGF ET++YK
Sbjct: 29 PTIGFNVETVEYK 41
>gnl|CDD|224884 COG1973, HypE, Hydrogenase maturation factor [Posttranslational
modification, protein turnover, chaperones].
Length = 449
Score = 26.3 bits (58), Expect = 7.9
Identities = 22/63 (34%), Positives = 32/63 (50%), Gaps = 7/63 (11%)
Query: 22 KGIDGSRVEKVLEAVHIAANKNTVP--GDVSAMVPGGIRMGTPALTSRG----FVEEDFA 75
K D R E++ +AV + KNT+ GD+ G+ MG + SRG FV E A
Sbjct: 38 KDWDRERAEEIADAV-LEEVKNTLKGLGDILGYPKSGVGMGEMGVGSRGEGDFFVHEKLA 96
Query: 76 KVA 78
++A
Sbjct: 97 ELA 99
>gnl|CDD|180715 PRK06828, PRK06828, amidase; Provisional.
Length = 491
Score = 26.3 bits (58), Expect = 8.0
Identities = 22/78 (28%), Positives = 34/78 (43%), Gaps = 8/78 (10%)
Query: 20 KNKGIDGSRVEKVLEAV----HIAANKNTVPGDVSAMVPGG-IRMGTP---ALTSRGFVE 71
+ +GID + + L+A+ +I + G S +P G + G P L S F E
Sbjct: 409 QEQGIDFALEKYNLDAILFPSYIGSTICAKAGYPSIAIPAGYMEGGRPFGITLASTAFSE 468
Query: 72 EDFAKVAYFFDAAVKLTV 89
K+AY F+ A K
Sbjct: 469 GTLIKLAYAFEQATKHRK 486
>gnl|CDD|173423 PTZ00133, PTZ00133, ADP-ribosylation factor; Provisional.
Length = 182
Score = 26.0 bits (57), Expect = 8.1
Identities = 10/20 (50%), Positives = 13/20 (65%)
Query: 125 EYAKQFPTIGFEKETMKYKS 144
E PTIGF ET++YK+
Sbjct: 41 EVVTTIPTIGFNVETVEYKN 60
>gnl|CDD|165788 PLN00223, PLN00223, ADP-ribosylation factor; Provisional.
Length = 181
Score = 25.7 bits (56), Expect = 8.7
Identities = 10/20 (50%), Positives = 13/20 (65%)
Query: 125 EYAKQFPTIGFEKETMKYKS 144
E PTIGF ET++YK+
Sbjct: 41 EIVTTIPTIGFNVETVEYKN 60
>gnl|CDD|206718 cd04151, Arl1, ADP ribosylation factor 1 (Arf1). Arl1 subfamily.
Arl1 (Arf-like 1) localizes to the Golgi complex, where
it is believed to recruit effector proteins to the
trans-Golgi network. Like most members of the Arf
family, Arl1 is myristoylated at its N-terminal helix
and mutation of the myristoylation site disrupts Golgi
targeting. In humans, the Golgi-localized proteins
golgin-97 and golgin-245 have been identified as Arl1
effectors. Golgins are large coiled-coil proteins found
in the Golgi, and these golgins contain a C-terminal
GRIP domain, which is the site of Arl1 binding.
Additional Arl1 effectors include the GARP
(Golgi-associated retrograde protein)/VFT (Vps53)
vesicle-tethering complex and Arfaptin 2. Arl1 is not
required for exocytosis, but appears necessary for
trafficking from the endosomes to the Golgi. In
Drosophila zygotes, mutation of Arl1 is lethal, and in
the host-bloodstream form of Trypanosoma brucei, Arl1 is
essential for viability.
Length = 158
Score = 25.4 bits (56), Expect = 8.9
Identities = 9/13 (69%), Positives = 10/13 (76%)
Query: 131 PTIGFEKETMKYK 143
PTIGF ET+ YK
Sbjct: 29 PTIGFNVETVTYK 41
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
0.314 0.131 0.362
Gapped
Lambda K H
0.267 0.0591 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 7,023,593
Number of extensions: 607318
Number of successful extensions: 427
Number of sequences better than 10.0: 1
Number of HSP's gapped: 419
Number of HSP's successfully gapped: 37
Length of query: 144
Length of database: 10,937,602
Length adjustment: 88
Effective length of query: 56
Effective length of database: 7,034,450
Effective search space: 393929200
Effective search space used: 393929200
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: 42 (22.0 bits)
S2: 54 (24.9 bits)