RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy15469
(297 letters)
>gnl|CDD|214532 smart00136, LamNT, Laminin N-terminal domain (domain VI).
N-terminal domain of laminins and laminin-related
protein such as Unc-6/ netrins.
Length = 238
Score = 249 bits (639), Expect = 4e-83
Identities = 109/242 (45%), Positives = 138/242 (57%), Gaps = 18/242 (7%)
Query: 4 RCIPPFENAAFSASVESTNTCGYQNGVPQPTRFCVQSGTHVTANTCDYC----YEDTHPV 59
C PPF N AF V +T+TCG P P R+C G CDYC +HP
Sbjct: 6 SCYPPFVNLAFGREVTATSTCG----EPGPERYCKLVGHTEQGKKCDYCDARNPRRSHPA 61
Query: 60 RYLTDLSNT--TTWWQSTTMYDGVQWPNQVNITLKFGKTFDVTYVRLLFWSPRPESFAIY 117
LTD +N TWWQS + +G Q VN+TL GK F VTYV L F SPRP S I
Sbjct: 62 ENLTDGNNPNNPTWWQSEPLSNGPQN---VNLTLDLGKEFHVTYVILKFCSPRP-SLWIL 117
Query: 118 KKTYENSSWTPFQFYSASCQETYGLPDDNS-GKANDSDTRVFCTSEYSDLSPLTGGAVPF 176
+++ +W P+Q++S+ C+ T+G P K N+ + V CTSEYSD+ PL GG + F
Sbjct: 118 ERSDFGKTWQPWQYFSSDCRRTFGRPPRGPITKGNEDE--VICTSEYSDIVPLEGGEIAF 175
Query: 177 ATLEGRYRAKTFSYNLNLQEFVTATEIRITLDRLNTFYDELF-LDPSVLRSYFYAIADIS 235
+ LEGR A F + LQE+VTAT IR+ L RL T DEL P V R Y+YAI+DI+
Sbjct: 176 SLLEGRPSATDFDNSPVLQEWVTATNIRVRLTRLRTLGDELMDDRPEVTRRYYYAISDIA 235
Query: 236 VG 237
VG
Sbjct: 236 VG 237
>gnl|CDD|215682 pfam00055, Laminin_N, Laminin N-terminal (Domain VI).
Length = 237
Score = 223 bits (569), Expect = 1e-72
Identities = 100/243 (41%), Positives = 137/243 (56%), Gaps = 15/243 (6%)
Query: 5 CIPPFENAAFSASVESTNTCGYQNGVPQPTRFCVQSGTHVTANTCDYC------YEDTHP 58
C P N A + ++ +T+TCG + P +C+ S C C ++HP
Sbjct: 1 CYPATGNLAINRALSATSTCG----LHGPEPYCILSHLQPRDKKCFLCDSNSPNPRESHP 56
Query: 59 VRYLTDLSN--TTTWWQSTTMYDGVQWPNQVNITLKFGKTFDVTYVRLLFWSPRPESFAI 116
+ +LTD N TTWWQS TM +GVQ+PN V ITL F TYV + F + RP + I
Sbjct: 57 ISFLTDTFNPQDTTWWQSETMQNGVQYPN-VTITLDLEAEFHFTYVIIKFKTFRP-AAMI 114
Query: 117 YKKTYENSSWTPFQFYSASCQETYGLPDDNSGKANDSDTRVFCTSEYSDLSPLTGGAVPF 176
Y+++ + +W P+Q+Y+ SC+ TY + ++ V CTS YSD+ PLT G V F
Sbjct: 115 YERSSDFGTWIPYQYYAYSCESTYPGIPRRPIRTGRAEDDVICTSRYSDIEPLTEGEVIF 174
Query: 177 ATLEGRYRAKTFSYNLNLQEFVTATEIRITLDRLNTFYDELF-LDPSVLRSYFYAIADIS 235
+TLEGR A F + LQE++ AT IRITL RL+T D L DP VL Y+YAI+DI
Sbjct: 175 STLEGRPSADNFDPSPRLQEWLKATNIRITLQRLHTLGDNLLDSDPEVLEKYYYAISDIV 234
Query: 236 VGA 238
VG
Sbjct: 235 VGG 237
>gnl|CDD|238012 cd00055, EGF_Lam, Laminin-type epidermal growth factor-like domain;
laminins are the major noncollagenous components of
basement membranes that mediate cell adhesion, growth
migration, and differentiation; the laminin-type
epidermal growth factor-like module occurs in tandem
arrays; the domain contains 4 disulfide bonds (loops
a-d) the first three resemble epidermal growth factor
(EGF); the number of copies of this domain in the
different forms of laminins is highly variable ranging
from 3 up to 22 copies.
Length = 50
Score = 51.2 bits (123), Expect = 5e-09
Identities = 19/59 (32%), Positives = 23/59 (38%), Gaps = 9/59 (15%)
Query: 239 RCKCNGHASECPYVRQSDGSTRRVCRCEHNTAGPDCNECAPFYNDAPWRRASDDANECR 297
C CNGH S G C C+ NT G C+ CAP Y P + C+
Sbjct: 1 PCDCNGHGSLSGQCDPGTG----QCECKPNTTGRRCDRCAPGYYGLPSQ-----GGGCQ 50
>gnl|CDD|215680 pfam00053, Laminin_EGF, Laminin EGF-like (Domains III and V). This
family is like pfam00008 but has 8 conserved cysteines
instead of six.
Length = 49
Score = 46.6 bits (111), Expect = 2e-07
Identities = 16/57 (28%), Positives = 19/57 (33%), Gaps = 8/57 (14%)
Query: 240 CKCNGHASECPYVRQSDGSTRRVCRCEHNTAGPDCNECAPFYNDAPWRRASDDANEC 296
C CN H S G C C+ G C+ C P Y + SD C
Sbjct: 1 CDCNPHGSLSDTCDPETG----QCLCKPGVTGRHCDRCKPGY----YGLPSDPGQGC 49
>gnl|CDD|214543 smart00180, EGF_Lam, Laminin-type epidermal growth factor-like
domai.
Length = 46
Score = 39.6 bits (93), Expect = 6e-05
Identities = 13/47 (27%), Positives = 16/47 (34%), Gaps = 4/47 (8%)
Query: 240 CKCNGHASECPYVRQSDGSTRRVCRCEHNTAGPDCNECAPFYNDAPW 286
C C+ S G C C+ N G C+ CAP Y
Sbjct: 1 CDCDPGGSASGTCDPDTG----QCECKPNVTGRRCDRCAPGYYGDGP 43
>gnl|CDD|227485 COG5156, DOC1, Anaphase-promoting complex (APC), subunit 10 [Cell
division and chromosome partitioning / Posttranslational
modification, protein turnover, chaperones].
Length = 189
Score = 37.3 bits (86), Expect = 0.005
Identities = 22/59 (37%), Positives = 30/59 (50%), Gaps = 8/59 (13%)
Query: 57 HPVRYLTDLSNTTTWWQSTTMYDGVQWPNQVNITLKFGKTFDVTYVRLLFWSPRPESFA 115
HP+R L D N T+WQS DGVQ P+ + I F K + V+L + ES+
Sbjct: 41 HPLRELLD-DNMDTYWQS----DGVQ-PHSIQI--SFDKRRYIQSVQLFLSFTQDESYT 91
>gnl|CDD|217458 pfam03256, APC10, Anaphase-promoting complex, subunit 10 (APC10).
Length = 175
Score = 36.6 bits (85), Expect = 0.005
Identities = 21/58 (36%), Positives = 28/58 (48%), Gaps = 7/58 (12%)
Query: 58 PVRYLTDLSNTTTWWQSTTMYDGVQWPNQVNITLKFGKTFDVTYVRLLFWSPRPESFA 115
V +L N T+WQS DG Q P+ VNI F K D++YV + ES+
Sbjct: 40 GVDHLLRDDNLDTYWQS----DGSQ-PHLVNIQ--FSKKTDISYVAIYLDYKLDESYT 90
>gnl|CDD|176484 cd08366, APC10, APC10 subunit of the anaphase-promoting complex
(APC) that mediates substrate ubiquitination. This
model represents the single domain protein APC10, a
subunit of the anaphase-promoting complex (APC), which
is a multi-subunit E3 ubiquitin ligase. E3 ubiquitin
ligases mediate substrate ubiquitination (or
ubiquitylation), a vital component of the ubiquitin-26S
proteasome pathway for selective proteolytic
degradation. The APC (also known as the cyclosome), is a
cell cycle-regulated E3 ubiquitin ligase that controls
important transitions in mitosis and the G1 phase by
ubiquitinating regulatory proteins, thereby targeting
them for degradation. In mitosis, the APC initiates
sister chromatid separation by ubiquitinating the
anaphase inhibitor securin and triggers exit from
mitosis by ubiquitinating cyclin B. The C-terminus of
APC10 binds to CDC27/APC3, an APC subunit that contains
multiple tetratrico peptide repeats. APC10 domains are
homologous to the DOC1 domains present in the HECT
(Homologous to the E6-AP Carboxyl Terminus) E3 ubiquitin
ligase protein, and the Cullin-RING (Really Interesting
New Gene) E3 ubiquitin ligase complex. The APC10/DOC1
domain forms a beta-sandwich structure that is related
in architecture to the galactose-binding domain-like
fold; their sequences are quite dissimilar, however, and
are not included here.
Length = 139
Score = 36.0 bits (84), Expect = 0.007
Identities = 20/58 (34%), Positives = 28/58 (48%), Gaps = 8/58 (13%)
Query: 57 HPVRYLTDLSNTTTWWQSTTMYDGVQWPNQVNITLKFGKTFDVTYVRLLFWSPRPESF 114
+ V L D + T+WQS DG Q P+ +NI F K D++ V L ES+
Sbjct: 18 NGVDQLRD-DSLDTYWQS----DGPQ-PHLINIQ--FSKKTDISAVALYLDYKLDESY 67
>gnl|CDD|216100 pfam00754, F5_F8_type_C, F5/8 type C domain. This domain is also
known as the discoidin (DS) domain family.
Length = 128
Score = 32.1 bits (73), Expect = 0.12
Identities = 23/106 (21%), Positives = 37/106 (34%), Gaps = 22/106 (20%)
Query: 58 PVRYLTDLSNTTTWWQSTTMYDGVQWPNQVNITLKFGKTFDVTYVRLLFWSPRPESFAIY 117
P D + +T W S+ D QW + + GK +T V R + Y
Sbjct: 15 PAAAAIDGNGSTAW--SSKWGDAPQW-----LQVDLGKPKKITGVVTQ---GRQDGGNGY 64
Query: 118 KKTYE------NSSWTPFQFYSASCQETYGLPDDNSGKANDSDTRV 157
K+Y+ +WT + YG D++ N D +
Sbjct: 65 VKSYKIEYSNDGENWTEVK------DGFYGNTDNSGPVKNLFDPPI 104
>gnl|CDD|223097 COG0018, ArgS, Arginyl-tRNA synthetase [Translation, ribosomal
structure and biogenesis].
Length = 577
Score = 29.9 bits (68), Expect = 2.0
Identities = 12/58 (20%), Positives = 22/58 (37%), Gaps = 10/58 (17%)
Query: 195 QEFVTAT--EIRITLDRLNTFYDELFLDPSVLRSYFY--AIADISVGARCKCNGHASE 248
++FV + I+ TLDRL +D + + + D+ + G E
Sbjct: 235 RKFVDLSLEGIKETLDRLGVKFDVYDSEGESFYNGKVEKVVEDL------EEKGLLYE 286
>gnl|CDD|215530 PLN02980, PLN02980, 2-oxoglutarate decarboxylase/ hydro-lyase/
magnesium ion binding / thiamin pyrophosphate binding.
Length = 1655
Score = 29.4 bits (66), Expect = 2.9
Identities = 11/25 (44%), Positives = 14/25 (56%)
Query: 220 DPSVLRSYFYAIADISVGARCKCNG 244
+P VL YFY DIS+ C +G
Sbjct: 832 EPRVLNQYFYTSHDISIENLCLAHG 856
>gnl|CDD|222637 pfam14266, DUF4356, Domain of unknown function (DUF4356). This
family of proteins is found in bacteria. Proteins in
this family are approximately 540 amino acids in length.
Length = 489
Score = 28.8 bits (65), Expect = 3.4
Identities = 20/71 (28%), Positives = 28/71 (39%), Gaps = 19/71 (26%)
Query: 165 DLSPLTGGAVPFATLEGRYRAKTFSYN--------LNLQE--------FVTATEIRITLD 208
P + PF T + R R T +Y L+ ++ F T + +TL
Sbjct: 192 IQLPSSTTLEPFPTEKKRVRKATVAYRASRELEQLLHTEDSGMYKPWQFRDHTPLSVTL- 250
Query: 209 RLNTFYDELFL 219
T YDELFL
Sbjct: 251 --KTTYDELFL 259
>gnl|CDD|218313 pfam04890, DUF648, Family of unknown function (DUF648). Family of
hypothetical Chlamydia proteins. This family may well
comprise of two domains, as some members only match the
N-terminus.
Length = 288
Score = 27.8 bits (62), Expect = 6.6
Identities = 10/39 (25%), Positives = 15/39 (38%)
Query: 102 VRLLFWSPRPESFAIYKKTYENSSWTPFQFYSASCQETY 140
V +P+ E F I KK Y+ T Y ++
Sbjct: 133 VEKAVRTPKKEFFNIPKKYYQRDMLTHVIGYLLGLEQQL 171
>gnl|CDD|236292 PRK08566, PRK08566, DNA-directed RNA polymerase subunit A';
Validated.
Length = 882
Score = 27.9 bits (63), Expect = 9.1
Identities = 11/18 (61%), Positives = 11/18 (61%), Gaps = 1/18 (5%)
Query: 234 ISVGARCK-CNGHASECP 250
I G RCK C G A ECP
Sbjct: 55 IDPGLRCKTCGGRAGECP 72
>gnl|CDD|237756 PRK14559, PRK14559, putative protein serine/threonine
phosphatase; Provisional.
Length = 645
Score = 27.7 bits (62), Expect = 9.5
Identities = 15/55 (27%), Positives = 19/55 (34%), Gaps = 11/55 (20%)
Query: 24 CGYQNGVPQPTRFCVQSGTHVTANTCDYCYEDTHPVRYLTDLSN------TTTWW 72
C ++N P RFC + GT +T C C V T WW
Sbjct: 7 CQFEN--PNNNRFCQKCGTSLTHKPCPQC---GTEVPVDEAHCPNCGAETGTIWW 56
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
0.319 0.133 0.434
Gapped
Lambda K H
0.267 0.0729 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 14,465,658
Number of extensions: 1286819
Number of successful extensions: 941
Number of sequences better than 10.0: 1
Number of HSP's gapped: 926
Number of HSP's successfully gapped: 18
Length of query: 297
Length of database: 10,937,602
Length adjustment: 96
Effective length of query: 201
Effective length of database: 6,679,618
Effective search space: 1342603218
Effective search space used: 1342603218
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 (21.8 bits)
S2: 59 (26.5 bits)