RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy57
(135 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 = 95.5 bits (238), Expect = 3e-25
Identities = 36/73 (49%), Positives = 46/73 (63%), Gaps = 3/73 (4%)
Query: 4 EENKITISLLDHRPSMKNFFNSTRLQEWTRATNVRLRLLRTKNLLGHLMSMADQDPTTTR 63
E +I SLL+ RPS +F NS LQEW ATN+R+RL R + L LM P TR
Sbjct: 169 EGGEIAFSLLEGRPSATDFDNSPVLQEWVTATNIRVRLTRLRTLGDELMDDR---PEVTR 225
Query: 64 RYFYSIKDISIGG 76
RY+Y+I DI++GG
Sbjct: 226 RYYYAISDIAVGG 238
>gnl|CDD|215682 pfam00055, Laminin_N, Laminin N-terminal (Domain VI).
Length = 237
Score = 72.9 bits (179), Expect = 1e-16
Identities = 32/73 (43%), Positives = 44/73 (60%), Gaps = 3/73 (4%)
Query: 4 EENKITISLLDHRPSMKNFFNSTRLQEWTRATNVRLRLLRTKNLLGHLMSMADQDPTTTR 63
E ++ S L+ RPS NF S RLQEW +ATN+R+ L R L +L+ D DP
Sbjct: 168 TEGEVIFSTLEGRPSADNFDPSPRLQEWLKATNIRITLQRLHTLGDNLL---DSDPEVLE 224
Query: 64 RYFYSIKDISIGG 76
+Y+Y+I DI +GG
Sbjct: 225 KYYYAISDIVVGG 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 = 41.2 bits (97), Expect = 3e-06
Identities = 17/48 (35%), Positives = 21/48 (43%), Gaps = 3/48 (6%)
Query: 77 RCRCNGHADVCDILDPEDPYHRICRCQHNTCGHNCEVCCPGYEQKAWR 124
C CNGH + DP C C+ NT G C+ C PGY +
Sbjct: 1 PCDCNGHGSLSGQCDPGTG---QCECKPNTTGRRCDRCAPGYYGLPSQ 45
>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 = 34.6 bits (80), Expect = 0.001
Identities = 16/41 (39%), Positives = 20/41 (48%), Gaps = 3/41 (7%)
Query: 78 CRCNGHADVCDILDPEDPYHRICRCQHNTCGHNCEVCCPGY 118
C CN H + D DPE C C+ G +C+ C PGY
Sbjct: 1 CDCNPHGSLSDTCDPE---TGQCLCKPGVTGRHCDRCKPGY 38
>gnl|CDD|214543 smart00180, EGF_Lam, Laminin-type epidermal growth factor-like
domai.
Length = 46
Score = 32.7 bits (75), Expect = 0.006
Identities = 16/44 (36%), Positives = 19/44 (43%), Gaps = 9/44 (20%)
Query: 78 CRCN--GHAD-VCDILDPEDPYHRICRCQHNTCGHNCEVCCPGY 118
C C+ G A CD P C C+ N G C+ C PGY
Sbjct: 1 CDCDPGGSASGTCD------PDTGQCECKPNVTGRRCDRCAPGY 38
>gnl|CDD|182580 PRK10599, PRK10599, calcium/sodium:proton antiporter; Provisional.
Length = 366
Score = 28.7 bits (64), Expect = 1.1
Identities = 13/31 (41%), Positives = 16/31 (51%)
Query: 46 NLLGHLMSMADQDPTTTRRYFYSIKDISIGG 76
+L+ LM+ D PT R YSI I GG
Sbjct: 87 SLISALMATGDAAPTLMRDTLYSIIMIVTGG 117
>gnl|CDD|215593 PLN03128, PLN03128, DNA topoisomerase 2; Provisional.
Length = 1135
Score = 28.1 bits (63), Expect = 1.7
Identities = 11/16 (68%), Positives = 12/16 (75%), Gaps = 1/16 (6%)
Query: 44 TKNL-LGHLMSMADQD 58
TK+L GHLM M DQD
Sbjct: 498 TKSLRYGHLMIMTDQD 513
>gnl|CDD|173785 cd03365, TOPRIM_TopoIIA, TOPRIM_TopoIIA: topoisomerase-primase
(TOPRIM) nucleotidyl transferase/hydrolase domain of
the type found in proteins of the type IIA family of
DNA topoisomerases similar to Saccharomyces cerevisiae
Topoisomerase II. TopoIIA enzymes cut both strands of
the duplex DNA to remove (relax) both positive and
negative supercoils in DNA. These enzymes covalently
attach to the 5' ends of the cut DNA, separate the free
ends of the cleaved strands, pass another region of the
duplex through this gap, then rejoin the ends. These
proteins also catenate/ decatenate duplex rings. The
TOPRIM domain has two conserved motifs, one of which
centers at a conserved glutamate and the other one at
two conserved aspartates (DxD). This glutamate and two
aspartates, cluster together to form a highly acid
surface patch. The conserved glutamate may act as a
general base in strand joining and as a general acid in
strand cleavage by topisomerases. The DXD motif may
co-ordinate Mg2+, a cofactor required for full
catalytic function.
Length = 120
Score = 26.9 bits (60), Expect = 2.5
Identities = 10/17 (58%), Positives = 11/17 (64%), Gaps = 1/17 (5%)
Query: 44 TKNL-LGHLMSMADQDP 59
TK+L G LM M DQD
Sbjct: 72 TKSLRYGRLMIMTDQDH 88
>gnl|CDD|220517 pfam10005, DUF2248, Uncharacterized protein conserved in bacteria
(DUF2248). Members of this family of hypothetical
bacterial proteins have no known function.
Length = 340
Score = 26.8 bits (60), Expect = 3.9
Identities = 10/30 (33%), Positives = 13/30 (43%), Gaps = 2/30 (6%)
Query: 79 RC-NGHADVCDILDPEDPYHRICR-CQHNT 106
C N VC+ L P D +CR C+
Sbjct: 53 FCANRAHAVCNWLVPADDPDALCRACRLTR 82
>gnl|CDD|240271 PTZ00108, PTZ00108, DNA topoisomerase 2-like protein; Provisional.
Length = 1388
Score = 26.9 bits (60), Expect = 4.7
Identities = 7/11 (63%), Positives = 7/11 (63%)
Query: 49 GHLMSMADQDP 59
G LM M DQD
Sbjct: 512 GSLMIMTDQDH 522
>gnl|CDD|184037 PRK13409, PRK13409, putative ATPase RIL; Provisional.
Length = 590
Score = 26.7 bits (60), Expect = 5.2
Identities = 7/17 (41%), Positives = 8/17 (47%)
Query: 101 RCQHNTCGHNCEVCCPG 117
RCQ C + C CP
Sbjct: 11 RCQPKKCNYECIKYCPV 27
>gnl|CDD|226757 COG4307, COG4307, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 349
Score = 26.4 bits (58), Expect = 5.8
Identities = 9/26 (34%), Positives = 12/26 (46%), Gaps = 1/26 (3%)
Query: 81 NGHADVCDILDPEDPYHRICR-CQHN 105
N H +C+ L P D +CR C
Sbjct: 50 NLHLAICNWLVPADQLGGLCRACVLT 75
>gnl|CDD|165308 PHA03007, PHA03007, hypothetical protein; Provisional.
Length = 540
Score = 26.4 bits (58), Expect = 6.4
Identities = 6/24 (25%), Positives = 14/24 (58%)
Query: 1 MEKEENKITISLLDHRPSMKNFFN 24
ME++ +KI+ + + P + +F
Sbjct: 1 MEEDFDKISKPDIIYTPILIDFIE 24
>gnl|CDD|224166 COG1245, COG1245, Predicted ATPase, RNase L inhibitor (RLI) homolog
[General function prediction only].
Length = 591
Score = 26.1 bits (58), Expect = 6.4
Identities = 8/17 (47%), Positives = 9/17 (52%)
Query: 101 RCQHNTCGHNCEVCCPG 117
RCQ CG+ C CP
Sbjct: 12 RCQPKKCGYECIKYCPV 28
>gnl|CDD|215530 PLN02980, PLN02980, 2-oxoglutarate decarboxylase/ hydro-lyase/
magnesium ion binding / thiamin pyrophosphate binding.
Length = 1655
Score = 26.4 bits (58), Expect = 7.2
Identities = 10/25 (40%), Positives = 14/25 (56%)
Query: 58 DPTTTRRYFYSIKDISIGGRCRCNG 82
+P +YFY+ DISI C +G
Sbjct: 832 EPRVLNQYFYTSHDISIENLCLAHG 856
>gnl|CDD|216164 pfam00869, Flavi_glycoprot, Flavivirus glycoprotein, central and
dimerisation domains.
Length = 293
Score = 26.0 bits (58), Expect = 7.3
Identities = 7/30 (23%), Positives = 11/30 (36%), Gaps = 2/30 (6%)
Query: 51 LMSMADQDPTTTRRYFY--SIKDISIGGRC 78
L + + P R Y Y + + RC
Sbjct: 45 LDKITAESPAEVREYCYEAKVSNTKTAARC 74
>gnl|CDD|216401 pfam01267, F-actin_cap_A, F-actin capping protein alpha subunit.
Length = 269
Score = 25.7 bits (57), Expect = 9.1
Identities = 9/32 (28%), Positives = 18/32 (56%)
Query: 1 MEKEENKITISLLDHRPSMKNFFNSTRLQEWT 32
+ + ++ I ++ H+ + KNF+N EWT
Sbjct: 135 KSEGDKELAIIIVSHKYNPKNFWNGRWRSEWT 166
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 0.135 0.450
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: 6,575,594
Number of extensions: 541724
Number of successful extensions: 438
Number of sequences better than 10.0: 1
Number of HSP's gapped: 434
Number of HSP's successfully gapped: 27
Length of query: 135
Length of database: 10,937,602
Length adjustment: 87
Effective length of query: 48
Effective length of database: 7,078,804
Effective search space: 339782592
Effective search space used: 339782592
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 53 (24.2 bits)