RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy11434
(151 letters)
>gnl|CDD|219818 pfam08393, DHC_N2, Dynein heavy chain, N-terminal region 2.
Dyneins are described as motor proteins of eukaryotic
cells, as they can convert energy derived from the
hydrolysis of ATP to force and movement along
cytoskeletal polymers, such as microtubules. This region
is found C-terminal to the dynein heavy chain N-terminal
region 1 (pfam08385) in many members of this family. No
functions seem to have been attributed specifically to
this region.
Length = 408
Score = 101 bits (254), Expect = 3e-26
Identities = 40/128 (31%), Positives = 64/128 (50%), Gaps = 17/128 (13%)
Query: 13 FQDICVSAIKEKDIEAKLNQLISDWSQVNLTFAPFKERGDLFLKPAETTEIIALIEDSIM 72
++I A KE IE L ++ W ++ P+K+ G LK + EII L++D+++
Sbjct: 131 IEEISEQAQKEYSIEKALKKIKDTWEELEFELVPYKDTGTYLLKGWD--EIIELLDDNLV 188
Query: 73 AT---------------IMEWLKNLSNSLEILESWMMIQNIWGYLEAVFSGGEISRQLPA 117
EW K L+ E+LE W+ +Q W YLE +FS +I +QLP
Sbjct: 189 TLQSMKASPYVKPFEEEADEWEKKLNLIQEVLELWLKVQRKWVYLEPIFSSSDIKKQLPE 248
Query: 118 EAKKFLEI 125
E+K+F +
Sbjct: 249 ESKRFSNV 256
>gnl|CDD|223048 PHA03333, PHA03333, putative ATPase subunit of terminase;
Provisional.
Length = 752
Score = 32.1 bits (73), Expect = 0.096
Identities = 13/48 (27%), Positives = 21/48 (43%), Gaps = 4/48 (8%)
Query: 93 MMIQNIWGYLEAVFSGGEISRQLPAEAKKFLEILFNTISVFNNVKTWT 140
M Q+ G+++ VFS G++ + K LE + V T T
Sbjct: 586 AMEQDKIGHVDVVFSVGDMVLKAFKRRDKVLESYLRADT----VTTAT 629
>gnl|CDD|180608 PRK06529, PRK06529, amidase; Provisional.
Length = 482
Score = 31.3 bits (71), Expect = 0.16
Identities = 14/39 (35%), Positives = 19/39 (48%), Gaps = 1/39 (2%)
Query: 24 KDIEAKL-NQLISDWSQVNLTFAPFKERGDLFLKPAETT 61
+DI AK +Q++ W + T A F E DL L T
Sbjct: 344 QDIPAKRYSQVLQKWDTYSATMASFHETYDLLLTFTTNT 382
>gnl|CDD|113736 pfam04976, DmsC, DMSO reductase anchor subunit (DmsC). The
terminal electron transfer enzyme Me2SO reductase of
Escherichia coli is a heterotrimeric enzyme composed of
a membrane extrinsic catalytic dimer (DmsAB) and a
membrane intrinsic polytopic anchor subunit (DmsC).
Length = 276
Score = 28.5 bits (64), Expect = 1.3
Identities = 16/78 (20%), Positives = 28/78 (35%), Gaps = 15/78 (19%)
Query: 64 IALIEDSIMATIMEWLKN-LSNSLEILESWMMIQNIWGYLEAVFSGGEISRQLPAEAKKF 122
+ LI +I+ I ++ N + S++ + +W W +L V GG
Sbjct: 116 LWLIVTAILGIIFVYMMNMVYASIKTVPTWHTGYTTWAFLLTVLMGGST----------- 164
Query: 123 LEILFNTISVFNNVKTWT 140
L + F V T
Sbjct: 165 ---LGYALLYFAGVDTGA 179
>gnl|CDD|236059 PRK07580, PRK07580, Mg-protoporphyrin IX methyl transferase;
Validated.
Length = 230
Score = 27.5 bits (62), Expect = 2.4
Identities = 13/44 (29%), Positives = 15/44 (34%), Gaps = 7/44 (15%)
Query: 42 LTFAP-------FKERGDLFLKPAETTEIIALIEDSIMATIMEW 78
TFAP G LF P+ TT I E I +
Sbjct: 162 FTFAPYTPLLALLHWIGGLFPGPSRTTRIYPHREKGIRRALAAA 205
>gnl|CDD|217510 pfam03354, Terminase_1, Phage Terminase. The majority of the
members of this family are bacteriophage proteins,
several of which are thought to be terminase large
subunit proteins. There are also a number of bacterial
proteins of unknown function.
Length = 473
Score = 26.3 bits (58), Expect = 7.5
Identities = 12/85 (14%), Positives = 29/85 (34%), Gaps = 13/85 (15%)
Query: 19 SAIKEKDIEAKLNQLISDWSQVNLTFAPFKERGDLFLKPAETTEIIALIE----DSIMAT 74
I I + I+ + +++ + P + I +E D +
Sbjct: 345 GMIDPNQIIPWILDFITK-TGLDVQAIGYD--------PWQAKYFIDRLESTFLDWPLVE 395
Query: 75 IMEWLKNLSNSLEILESWMMIQNIW 99
I + +LSN ++ L+ + +
Sbjct: 396 IRQGFFSLSNPIKELQELVAENKLT 420
>gnl|CDD|238936 cd01977, Nitrogenase_VFe_alpha, Nitrogenase_VFe_alpha -like:
Nitrogenase VFe protein, alpha subunit like. This group
contains proteins similar to the alpha subunits of, the
VFe protein of the vanadium-dependent (V-) nitrogenase
and the FeFe protein of the iron only (Fe-) nitrogenase
Nitrogenase catalyzes the ATP-dependent reduction of
dinitrogen (N2) to ammonia. In addition to V- and Fe-
nitrogenases there is a molybdenum (Mo)-dependent
nitrogenase which is the most widespread and best
characterized of these systems. These systems consist
of component 1 (VFe protein, FeFe protein or, MoFe
protein respectively) and, component 2 (Fe protein).
MoFe is an alpha2beta2 tetramer, V-and Fe- nitrogenases
are alpha2beta2delta2 hexamers. The alpha and beta
subunits of VFe and FeFe are similar to the alpha and
beta subunits of MoFe. For MoFe each alphabeta pair
contains one P-cluster (at the alphabeta interface) and,
one molecule of iron molybdenum cofactor (FeMoco)
contained within the alpha subunit. The Fe protein which
has a practically identical structure in all three
systems, it contains a single [4Fe-4S] cluster.
Electrons are transferred from the [4Fe-4S] cluster of
the Fe protein to the P-cluster of the MoFe and in turn
to FeMoCo, the site of substrate reduction. The
V-nitrogenase requires an iron-vanadium cofactor
(FeVco), the iron only-nitrogenase an iron only cofactor
(FeFeco). These cofactors are analogous to the FeMoco.
The V-nitrogenase has P clusters identical to those of
MoFe. In addition to N2, nitrogenase also catalyzes the
reduction of a variety of other substrates such as
acetylene The V-nitrogenase differs from the
Mo-nitrogenase in that it produces free hydrazine, as a
minor product during dinitrogen reduction and, ethane
as a minor product during acetylene reduction.
Length = 415
Score = 26.2 bits (58), Expect = 8.4
Identities = 24/84 (28%), Positives = 34/84 (40%), Gaps = 13/84 (15%)
Query: 3 RCIINEGNFNFQDICVSAIKEKDI----EAKLNQLISDWSQVNLTFAPFKERGDLFLKPA 58
R + NF + I + +KE + E KL + I + FKE D+
Sbjct: 44 RYPSDNDNFQLKYIWSTDMKESHVVFGGEKKLKKNIIE---------AFKEFPDIKRMTV 94
Query: 59 ETTEIIALIEDSIMATIMEWLKNL 82
TT ALI D I A E ++ L
Sbjct: 95 YTTCTTALIGDDIKAVAKEVMEEL 118
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
0.318 0.134 0.397
Gapped
Lambda K H
0.267 0.0711 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 7,689,104
Number of extensions: 689052
Number of successful extensions: 670
Number of sequences better than 10.0: 1
Number of HSP's gapped: 668
Number of HSP's successfully gapped: 16
Length of query: 151
Length of database: 10,937,602
Length adjustment: 88
Effective length of query: 63
Effective length of database: 7,034,450
Effective search space: 443170350
Effective search space used: 443170350
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 (21.7 bits)
S2: 54 (24.6 bits)