RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy5464
(481 letters)
>gnl|CDD|216263 pfam01044, Vinculin, Vinculin family.
Length = 850
Score = 354 bits (911), Expect = e-114
Identities = 189/506 (37%), Positives = 245/506 (48%), Gaps = 137/506 (27%)
Query: 19 EIRTMSVEKTLEPLVLQVTTLVNTKGPSKKKKGRSKRAHVLVAAVEKATENFIERG---- 74
E RT +VEK LEPL QVTTLV T PS+K G S VAAV +A N IE G
Sbjct: 1 EFRTKTVEKILEPLAQQVTTLVITHEPSEKDGGASPDLTAPVAAVSQAVSNLIEVGYDIA 60
Query: 75 ---------------------DAMSLAAREFADDPCSSLKRGNMVRAARNLLSAVTRLLI 113
M A+REFA DP SS KRG ++R AR LLSAV+RLLI
Sbjct: 61 NSSPDLKQDMPPALERVEKTGQLMEQASREFASDPYSSPKRGKLIRGARGLLSAVSRLLI 120
Query: 114 LADMVDVHLLLKSLRVVEDDLEKVKNASSQGELLDNIKAFGRNATELMAQAAKHGAEGSS 173
LAD DV +++ + V D L + A
Sbjct: 121 LADEADVRKIIRVCKKVLDYLAVAEVAE-------------------------------- 148
Query: 174 ATQGELLDNIKAFGRNATELMAQAAKRQMELKDPQLRDDLAAARAILKKHSTMLLTASKV 233
T +L+ K G N T+L +RQ EL RD LAAAR LKK + +L+TA K+
Sbjct: 149 -TMEDLVQFYKDLGPNMTKLNKMVDRRQQELTHQVHRDILAAARDTLKKLAPILITAMKI 207
Query: 234 YVRHPELAAAKENRNF--------------VLGTTGFFTL--AVTSLKKRSVSLLHQVYE 277
+VRHP + A+ENR++ VL T + + A++ + + L + +
Sbjct: 208 FVRHPGVEEARENRDYTAKQMSDAMNEIIRVLQLTSYTVMKKALSGIGSELAAALDWLDD 267
Query: 278 RMVMDPLAYN-ERVRPSLEERLESIISGAALMADSNCTRDDRRERIVAECN-AVRQALQD 335
+++DP Y ER RPSLEER+ESIISGAALMADS CTR +R + IVAECN A RQALQD
Sbjct: 268 PIIIDPATYIEERCRPSLEERIESIISGAALMADSLCTRRNRGQAIVAECNGAGRQALQD 327
Query: 336 LLSEYMANMSIKDPSEGLERAIDHMCRKTRDLRRQLRKAVVDHERMVMDPLAYNERVRPS 395
LLSEYM KD + L AID M +K
Sbjct: 328 LLSEYMKLAGRKDDLDALCDAIDRMRKK-------------------------------- 355
Query: 396 LEERLESIISGAALMADSNCTRDDRRERIVAECNAVRQALQDLLSD-FMETDIPILVLIE 454
TRD RR +R+A+ D +SD F++T P+ +LIE
Sbjct: 356 --------------------TRDLRR--------QLRKAVVDHVSDSFLDTTTPLKLLIE 387
Query: 455 AARSGNEKEVEKAAENFADHANKLVE 480
AA++G E+ E+ A+NF +HAN+LVE
Sbjct: 388 AAKAGREENFEEKAQNFQEHANRLVE 413
>gnl|CDD|173607 PTZ00417, PTZ00417, lysine-tRNA ligase; Provisional.
Length = 585
Score = 32.7 bits (74), Expect = 0.52
Identities = 18/59 (30%), Positives = 31/59 (52%), Gaps = 4/59 (6%)
Query: 375 VVDHERMVMDPLAYNERVRPSLEERLESIISGAALMADSNCTRDDRRERIVAECNAVRQ 433
+++H + +M PLA R +P L ERLE I G ++ D +++ EC + +Q
Sbjct: 470 IIEHPQ-IMSPLAKYHRSKPGLTERLEMFICGKEVLNAYTELNDPFKQK---ECFSAQQ 524
Score = 31.1 bits (70), Expect = 1.4
Identities = 17/52 (32%), Positives = 26/52 (50%), Gaps = 3/52 (5%)
Query: 280 VMDPLAYNERVRPSLEERLESIISGAALMADSNCTRDDRRERIVAECNAVRQ 331
+M PLA R +P L ERLE I G ++ D +++ EC + +Q
Sbjct: 476 IMSPLAKYHRSKPGLTERLEMFICGKEVLNAYTELNDPFKQK---ECFSAQQ 524
>gnl|CDD|227406 COG5074, COG5074, t-SNARE complex subunit, syntaxin [Intracellular
trafficking and secretion].
Length = 280
Score = 31.4 bits (71), Expect = 1.0
Identities = 37/171 (21%), Positives = 66/171 (38%), Gaps = 12/171 (7%)
Query: 304 GAALMADSNCTRDDRRERIVAECNAVRQALQDLLSEYMANMSIKDPSEGLERAIDHMCRK 363
G M + E N + +DLL+E S K L R++D+ +
Sbjct: 20 GVTFMNKILSINKNLS-VYEKEINQIDNLHKDLLTEVFEEQSRK-----LRRSLDNFSSQ 73
Query: 364 TRDLRRQLRKAVVDHERMVMDPLAYNERVRPSLEERLESIISGAALMADSNCTRDD---- 419
T DL+R L+K + ER + + ++ L+ I + DSN ++
Sbjct: 74 TTDLQRNLKKDIKSAERDGIHLANKQAQAENVRQKFLKLI--QDYRIIDSNYREEEKEQA 131
Query: 420 RRERIVAECNAVRQALQDLLSDFMETDIPILVLIEAARSGNEKEVEKAAEN 470
RR+ I+A+ A ++ ++D + L+ A R G K +
Sbjct: 132 RRQYIIAQPEATEDEVEAAINDVNGQQVFSQALLNANRRGEAKTALAEVQA 182
>gnl|CDD|152121 pfam11685, DUF3281, Protein of unknown function (DUF3281). This
family of bacterial proteins has no known function.
Length = 269
Score = 30.5 bits (69), Expect = 1.5
Identities = 10/30 (33%), Positives = 13/30 (43%)
Query: 301 IISGAALMADSNCTRDDRRERIVAECNAVR 330
IIS L+ + RIV +CN V
Sbjct: 10 IISSTVLLGSCGKSETATELRIVDQCNTVN 39
Score = 30.5 bits (69), Expect = 1.5
Identities = 10/30 (33%), Positives = 13/30 (43%)
Query: 403 IISGAALMADSNCTRDDRRERIVAECNAVR 432
IIS L+ + RIV +CN V
Sbjct: 10 IISSTVLLGSCGKSETATELRIVDQCNTVN 39
>gnl|CDD|225603 COG3061, OapA, Cell envelope opacity-associated protein A [Cell
envelope biogenesis, outer membrane].
Length = 242
Score = 29.9 bits (67), Expect = 2.2
Identities = 26/123 (21%), Positives = 46/123 (37%), Gaps = 27/123 (21%)
Query: 18 LEIRTMSVEKTLEPLVLQVTTLVNT--------KGPSKKKKGRSKRAHVLVAAVEKATEN 69
+++ +EKT PL Q T T P + K+ + V + ++ N
Sbjct: 99 VDLTPKVLEKTEAPLKAQEVTPAKTPDQPAPVEPEPIQAKQEKKVPRTVDAQPFKPSSGN 158
Query: 70 F----IERGDAMS---------------LAAREFADDPCSSLKRGNMVRAARNLLSAVTR 110
+ + +G ++ +A E A P S+LK G V+ + N VT
Sbjct: 159 WQSYTVPQGKTLAQLFRDNNLPITDVNAMAKVEGAGKPLSNLKAGQKVKISLNAQGRVTE 218
Query: 111 LLI 113
L +
Sbjct: 219 LRL 221
>gnl|CDD|176242 cd08282, PFDH_like, Pseudomonas putida aldehyde-dismutating
formaldehyde dehydrogenase (PFDH). Formaldehyde
dehydrogenase (FDH) is a member of the
zinc-dependent/medium chain alcohol dehydrogenase
family. Unlike typical FDH, Pseudomonas putida
aldehyde-dismutating FDH (PFDH) is
glutathione-independent. PFDH converts 2 molecules of
aldehydes to corresponding carboxylic acid and alcohol.
MDH family uses NAD(H) as a cofactor in the
interconversion of alcohols and aldehydes, or ketones.
Like the zinc-dependent alcohol dehydrogenases (ADH) of
the medium chain alcohol dehydrogenase/reductase family
(MDR), these tetrameric FDHs have a catalytic zinc that
resides between the catalytic and NAD(H)binding domains
and a structural zinc in a lobe of the catalytic domain.
Unlike ADH, where NAD(P)(H) acts as a cofactor, NADH in
FDH is a tightly bound redox cofactor (similar to
nicotinamide proteins). The medium chain alcohol
dehydrogenase family (MDR) has a NAD(P)(H)-binding
domain in a Rossmann fold of an beta-alpha form. The
N-terminal region typically has an all-beta catalytic
domain. These proteins typically form dimers (typically
higher plants, mammals) or tetramers (yeast, bacteria),
and have 2 tightly bound zinc atoms per subunit.
Length = 375
Score = 29.1 bits (66), Expect = 5.2
Identities = 14/36 (38%), Positives = 18/36 (50%), Gaps = 9/36 (25%)
Query: 213 LAAARAILKKHSTMLLTASKVYV--RHPE-LAAAKE 245
L AA +S +L AS+VYV PE L A+
Sbjct: 190 LMAA------YSAILRGASRVYVVDHVPERLDLAES 219
>gnl|CDD|153345 cd07661, BAR_ICA69, The Bin/Amphiphysin/Rvs (BAR) domain of Islet
Cell Autoantigen 69-kDa. The BAR domain of
Arfaptin-like proteins, also called the Arfaptin domain,
is a dimerization and lipid binding module that can
detect and drive membrane curvature. Islet cell
autoantigen 69-kDa (ICA69) is a diabetes-associated
autoantigen that is highly expressed in brain and beta
cells. It is involved in membrane trafficking at the
Golgi complex in neurosecretory cells. It is coexpressed
with Protein Interacting with C Kinase 1 (PICK1), also a
the BAR domain containing protein, in many tissues at
different developmental stages. In neurons, ICA69
colocalizes with PICK1 in cell bodies and dendrites but
is absent in synapses where PICK1 is enriched. ICA69
contains an N-terminal BAR domain and a conserved
C-terminal domain of unknown function. BAR domains form
dimers that bind to membranes, induce membrane bending
and curvature, and may also be involved in
protein-protein interactions. ICA69 associates with
PICK1 through their BAR domains to form a heterodimer
which is involved in regulating the synaptic targeting
and surface expression of AMPA receptors. Autoantibodies
against ICA69 have been identified in patients with
insulin-dependent diabetes mellitus, rheumatoid
arthritis, and primary Sjogren's syndrome. ICA69 has
also been shown to be released by pancreatic cancer
cells.
Length = 204
Score = 28.6 bits (64), Expect = 5.2
Identities = 18/69 (26%), Positives = 32/69 (46%), Gaps = 1/69 (1%)
Query: 319 RERIVAECNAVRQALQDLLSEYMANMS-IKDPSEGLERAIDHMCRKTRDLRRQLRKAVVD 377
RER +A+ Q ++ +EY A + +K S+ L+ K R + Q+R A
Sbjct: 93 RERAIADTLQTIQRMEKCRTEYRAALLWMKSVSQELDPDTYKQLEKFRKAQAQVRSAKER 152
Query: 378 HERMVMDPL 386
+++ MD
Sbjct: 153 FDKLKMDVC 161
>gnl|CDD|223085 COG0006, PepP, Xaa-Pro aminopeptidase [Amino acid transport and
metabolism].
Length = 384
Score = 28.9 bits (65), Expect = 5.7
Identities = 27/92 (29%), Positives = 40/92 (43%), Gaps = 18/92 (19%)
Query: 110 RLLILADMVDVHLLLKSLRVV--EDDLEKVKNASSQGE-----LLDNIKAFGRN----AT 158
L A++VD L+ LR++ ++ K++ A+ + L+ I+ G A
Sbjct: 134 AALPRAELVDASDLVDRLRLIKSPAEIAKIRKAAEIADAALEAALEAIRP-GMTEAEIAA 192
Query: 159 ELMAQAAKHGAEGSSATQGELLDNIKAFGRNA 190
EL K GAEG S D I A G NA
Sbjct: 193 ELEYALRKGGAEGPS------FDTIVASGENA 218
>gnl|CDD|185588 PTZ00385, PTZ00385, lysyl-tRNA synthetase; Provisional.
Length = 659
Score = 29.2 bits (65), Expect = 5.9
Identities = 14/32 (43%), Positives = 19/32 (59%), Gaps = 1/32 (3%)
Query: 375 VVDHERMVMDPLAYNERVRPSLEERLESIISG 406
V+DH + M PLA + RP L ER E ++G
Sbjct: 451 VMDHP-LFMSPLAKEQVSRPGLAERFELFVNG 481
>gnl|CDD|224980 COG2069, CdhD, CO dehydrogenase/acetyl-CoA synthase delta subunit
(corrinoid Fe-S protein) [Energy production and
conversion].
Length = 403
Score = 29.0 bits (65), Expect = 6.7
Identities = 9/21 (42%), Positives = 14/21 (66%)
Query: 365 RDLRRQLRKAVVDHERMVMDP 385
+ L R+L K + +R+VMDP
Sbjct: 266 KTLNRKLLKRGLPRDRIVMDP 286
>gnl|CDD|100031 cd02195, SelD, Selenophosphate synthetase (SelD) catalyzes the
conversion of selenium to selenophosphate which is
required by a number of bacterial, archaeal and
eukaryotic organisms for synthesis of Secys-tRNA, the
precursor of selenocysteine in selenoenzymes. The
N-terminal domain of SelD is related to the ATP-binding
domains of hydrogen expression/formation protein HypE,
the AIR synthases, and FGAM synthase and is thought to
bind ATP.
Length = 287
Score = 28.6 bits (65), Expect = 6.8
Identities = 10/35 (28%), Positives = 15/35 (42%)
Query: 342 ANMSIKDPSEGLERAIDHMCRKTRDLRRQLRKAVV 376
A M+ E ++ A++ M R R LRK
Sbjct: 182 AEMAGLARGEDIDAALESMARLNRAAAELLRKYGA 216
>gnl|CDD|129010 smart00771, ZipA_C, ZipA, C-terminal domain (FtsZ-binding).
C-terminal domain of ZipA, a component of cell division
in E.coli. It interacts with the FtsZ protein in one of
the initial steps of septum formation. The structure of
this domain is composed of three alpha-helices and a
beta-sheet consisting of six antiparallel beta-strands.
Length = 131
Score = 27.6 bits (62), Expect = 7.3
Identities = 17/63 (26%), Positives = 23/63 (36%), Gaps = 11/63 (17%)
Query: 341 MANMSIKD-------PSEGL-ERAIDHMCRKTRDLRRQLRKAVVDHERMVMDP---LAYN 389
M N S PS G + D M + R L L V+D +R + P Y
Sbjct: 69 MDNFSTPGVSFFLDLPSVGDALQNFDLMLQTARRLADDLGGVVLDDQRRPLTPQAIAEYR 128
Query: 390 ERV 392
R+
Sbjct: 129 ARI 131
>gnl|CDD|232948 TIGR00381, cdhD, CO dehydrogenase/acetyl-CoA synthase, delta
subunit. This is the small subunit of a heterodimer
which catalyzes the reaction CO + H2O + Acceptor = CO2 +
Reduced acceptor and is involved in the synthesis of
acetyl-CoA from CO2 and H2 [Energy metabolism,
Chemoautotrophy].
Length = 389
Score = 28.8 bits (64), Expect = 7.3
Identities = 8/21 (38%), Positives = 11/21 (52%)
Query: 365 RDLRRQLRKAVVDHERMVMDP 385
+ L R L K + +VMDP
Sbjct: 255 KTLNRYLLKRGLMPRDIVMDP 275
>gnl|CDD|227632 COG5322, COG5322, Predicted dehydrogenase [General function
prediction only].
Length = 351
Score = 28.3 bits (63), Expect = 9.8
Identities = 25/87 (28%), Positives = 31/87 (35%), Gaps = 13/87 (14%)
Query: 145 ELLDNIKAFGRNATELMAQAAKHGAE-----GSSATQGELLDNIKAF--------GRNAT 191
L KA R MA A K GA+ G S+ G L N++
Sbjct: 84 MLRSRPKAATRRVLNAMALAQKLGADVTGLGGFSSIVGNLGQNVQVRNVELTFTRFTTGN 143
Query: 192 ELMAQAAKRQMELKDPQLRDDLAAARA 218
A AA RQ+ QL DL+ A
Sbjct: 144 SHTAYAACRQVLKHFAQLGIDLSQATV 170
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
0.317 0.130 0.351
Gapped
Lambda K H
0.267 0.0747 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 24,439,747
Number of extensions: 2463833
Number of successful extensions: 3160
Number of sequences better than 10.0: 1
Number of HSP's gapped: 3143
Number of HSP's successfully gapped: 63
Length of query: 481
Length of database: 10,937,602
Length adjustment: 101
Effective length of query: 380
Effective length of database: 6,457,848
Effective search space: 2453982240
Effective search space used: 2453982240
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: 41 (21.7 bits)
S2: 61 (27.2 bits)