RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy3409
(139 letters)
>gnl|CDD|218183 pfam04628, Sedlin_N, Sedlin, N-terminal conserved region.
Mutations in this protein are associated with the
X-linked spondyloepiphyseal dysplasia tarda syndrome
(OMIM:313400). This family represents an N-terminal
conserved region.
Length = 127
Score = 160 bits (406), Expect = 9e-52
Identities = 61/127 (48%), Positives = 92/127 (72%), Gaps = 3/127 (2%)
Query: 10 VGREDNPLYQRGFSCKEANDNENKYYYEFIAHASLDLLDEQVWQTDHMYLKTIDKFNDMM 69
+G++DNPLY++ FS E + K+ +FIAHASLD+++E W+T++MYL +D FND+
Sbjct: 2 IGKKDNPLYEQEFS-SEGKTSIPKHLNQFIAHASLDIVEELQWKTNNMYLGLVDSFNDLA 60
Query: 70 VSAFVTPTGVKFLMVHDS--KNEEGIKKFFTSVYELFIKYSLNPFYKINTPINSTYFDSK 127
VS +VT T +KF+++HDS + ++ IK+FF V+EL+IK +NPFY+ N PI S FD+K
Sbjct: 61 VSGYVTNTHIKFILLHDSSTERDDDIKQFFREVHELYIKTLMNPFYEPNDPIRSPAFDAK 120
Query: 128 VNFLGRK 134
V L +K
Sbjct: 121 VRRLAKK 127
>gnl|CDD|227890 COG5603, TRS20, Subunit of TRAPP, an ER-Golgi tethering complex
[Cell motility and secretion].
Length = 136
Score = 116 bits (293), Expect = 1e-34
Identities = 44/133 (33%), Positives = 76/133 (57%), Gaps = 2/133 (1%)
Query: 6 YFVMVGREDNPLYQRGFSC--KEANDNENKYYYEFIAHASLDLLDEQVWQTDHMYLKTID 63
Y ++G +DNP+Y+R + K ++ + +FI HASLD++ W + Y +D
Sbjct: 4 YLAIIGEKDNPVYEREYDPINKTSDGEYCRLLNQFIIHASLDIVVWLQWSVNTSYFDCLD 63
Query: 64 KFNDMMVSAFVTPTGVKFLMVHDSKNEEGIKKFFTSVYELFIKYSLNPFYKINTPINSTY 123
F D+ +SA++ P+G+KFL +H +++ + + F V+EL+ K ++PFY+ + PI S
Sbjct: 64 SFGDLRISAYIMPSGMKFLFIHQNQSRKNARSFLQEVHELYAKTLMSPFYEPDEPIRSQA 123
Query: 124 FDSKVNFLGRKFL 136
FD V R L
Sbjct: 124 FDDGVREAARVCL 136
>gnl|CDD|146632 pfam04099, Sybindin, Sybindin-like family. Sybindin is a
physiological syndecan-2 ligand on dendritic spines, the
small protrusions on the surface of dendrites that
receive the vast majority of excitatory synapses.
Length = 135
Score = 49.2 bits (118), Expect = 2e-08
Identities = 21/56 (37%), Positives = 26/56 (46%), Gaps = 1/56 (1%)
Query: 73 FVTPTGVKFLMVHDSKNEEGIKKFFTSVYELFIKYSL-NPFYKINTPINSTYFDSK 127
T TG+KF++V D YEL+ Y L NPFY + PI FD K
Sbjct: 72 LQTLTGIKFVLVTDPGTGPNRDSLLRKYYELYSDYVLKNPFYSLEMPIRCELFDEK 127
>gnl|CDD|227451 COG5122, TRS23, Transport protein particle (TRAPP) complex subunit
[Intracellular trafficking and secretion].
Length = 134
Score = 33.3 bits (76), Expect = 0.014
Identities = 19/65 (29%), Positives = 32/65 (49%), Gaps = 2/65 (3%)
Query: 65 FNDMMVSAFVTPTGVKFLMVHDSKNEEGIKKFFTSVYELFIKYSL-NPFYKINTPINSTY 123
F + +++ F T TG KF+ V + + + + +Y L+ Y NPFY PI +
Sbjct: 64 FRNFVMTIFQTTTGTKFVFVAEKRTVNALFQL-QKIYSLYSDYVTKNPFYSPEMPIQCSL 122
Query: 124 FDSKV 128
FD +
Sbjct: 123 FDEHL 127
>gnl|CDD|182265 PRK10144, PRK10144, formate-dependent nitrite reductase complex
subunit NrfF; Provisional.
Length = 126
Score = 27.5 bits (61), Expect = 1.4
Identities = 12/39 (30%), Positives = 19/39 (48%), Gaps = 2/39 (5%)
Query: 81 FLMVHDSKNEEGIKKFFTSVYELFIKYSLNPFYKINTPI 119
+ MV + K+E I + T Y F++Y NP T +
Sbjct: 67 YSMVAEGKSEVEIIGWMTERYGDFVRY--NPPLTGQTLV 103
>gnl|CDD|217050 pfam02460, Patched, Patched family. The transmembrane protein
Patched is a receptor for the morphogene Sonic Hedgehog.
This protein associates with the smoothened protein to
transduce hedgehog signals.
Length = 801
Score = 28.5 bits (64), Expect = 1.5
Identities = 16/67 (23%), Positives = 23/67 (34%), Gaps = 5/67 (7%)
Query: 14 DNPLYQRGFSCKEANDNENKYYYEFIAHASLDLLDEQVWQTDHMYLKTIDKFNDMMVSAF 73
+N G E D E + Y+ + L WQ D ++ D N V+ F
Sbjct: 541 ENFYKTNGS---ELEDEEKSWSYDEL-KWFLKWPGNSPWQGDLVWDNKSDD-NTTEVTKF 595
Query: 74 VTPTGVK 80
T K
Sbjct: 596 RFTTAGK 602
>gnl|CDD|213830 TIGR03576, pyridox_MJ0158, pyridoxal phosphate enzyme, MJ0158
family. Members of this archaeal protein family are
pyridoxal phosphate enzymes of unknown function.
Sequence similarity to SelA, a bacterial enzyme of
selenocysteine biosynthesis, has led to some members
being misannotated as functionally equivalent, but
selenocysteine is made on tRNA in Archaea by a two-step
process that does not involve a SelA homolog [Unknown
function, Enzymes of unknown specificity].
Length = 346
Score = 25.9 bits (57), Expect = 9.3
Identities = 9/25 (36%), Positives = 13/25 (52%)
Query: 115 INTPINSTYFDSKVNFLGRKFLTGN 139
+ T + F+ KV LGR+ L G
Sbjct: 46 LETYVGPAIFEEKVQELGREHLGGP 70
>gnl|CDD|213778 TIGR03147, cyt_nit_nrfF, cytochrome c nitrite reductase, accessory
protein NrfF. [Energy metabolism, Electron transport].
Length = 126
Score = 25.1 bits (55), Expect = 9.7
Identities = 12/37 (32%), Positives = 22/37 (59%), Gaps = 2/37 (5%)
Query: 81 FLMVHDSKNEEGIKKFFTSVYELFIKYSLNPFYKINT 117
+ MV++ K+ + I F T+ + F++Y NP +K T
Sbjct: 67 YSMVNEGKSNQQIIDFMTARFGDFVRY--NPPFKWQT 101
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
0.322 0.138 0.415
Gapped
Lambda K H
0.267 0.0723 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 7,130,016
Number of extensions: 624486
Number of successful extensions: 463
Number of sequences better than 10.0: 1
Number of HSP's gapped: 458
Number of HSP's successfully gapped: 24
Length of query: 139
Length of database: 10,937,602
Length adjustment: 87
Effective length of query: 52
Effective length of database: 7,078,804
Effective search space: 368097808
Effective search space used: 368097808
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 (21.9 bits)
S2: 54 (24.6 bits)