RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 032810
(133 letters)
>gnl|CDD|117362 pfam08792, A2L_zn_ribbon, A2L zinc ribbon domain. This zinc ribbon
domain is found associated with some viral A2L
transcription factors.
Length = 33
Score = 35.0 bits (81), Expect = 7e-04
Identities = 13/29 (44%), Positives = 20/29 (68%)
Query: 102 QRRCEVCGGSGLVLREKDYFKCPECGMSY 130
++C+ CGG+G+V +E DY C CG S+
Sbjct: 3 LKKCKYCGGNGIVNKEDDYEVCIFCGASF 31
>gnl|CDD|184603 PRK14282, PRK14282, chaperone protein DnaJ; Provisional.
Length = 369
Score = 34.4 bits (79), Expect = 0.010
Identities = 13/31 (41%), Positives = 18/31 (58%), Gaps = 4/31 (12%)
Query: 99 IIAQRRCEVCGGSGLVLREKDYFKCPECGMS 129
+++R CE CGG+G + E C ECG S
Sbjct: 192 FVSERTCERCGGTGKIPGE----YCHECGGS 218
>gnl|CDD|237656 PRK14280, PRK14280, chaperone protein DnaJ; Provisional.
Length = 376
Score = 33.5 bits (77), Expect = 0.021
Identities = 10/30 (33%), Positives = 17/30 (56%), Gaps = 4/30 (13%)
Query: 98 RIIAQRRCEVCGGSGLVLREKDYFKCPECG 127
R++ ++ C C G+G ++E KCP C
Sbjct: 182 RVVNRQTCPHCNGTGQEIKE----KCPTCH 207
>gnl|CDD|237658 PRK14284, PRK14284, chaperone protein DnaJ; Provisional.
Length = 391
Score = 31.4 bits (71), Expect = 0.100
Identities = 12/27 (44%), Positives = 17/27 (62%), Gaps = 4/27 (14%)
Query: 105 CEVCGGSGLVLREKDYFK----CPECG 127
C+ C GSG V++ + +F CPECG
Sbjct: 178 CDRCKGSGQVVQSRGFFSMASTCPECG 204
>gnl|CDD|237664 PRK14294, PRK14294, chaperone protein DnaJ; Provisional.
Length = 366
Score = 30.5 bits (69), Expect = 0.19
Identities = 11/26 (42%), Positives = 14/26 (53%), Gaps = 4/26 (15%)
Query: 105 CEVCGGSGLVLREKDYFK----CPEC 126
C CGGSG V + + +F CP C
Sbjct: 164 CPQCGGSGQVTQSQGFFSIRTTCPRC 189
>gnl|CDD|235202 PRK04023, PRK04023, DNA polymerase II large subunit; Validated.
Length = 1121
Score = 30.3 bits (69), Expect = 0.28
Identities = 11/28 (39%), Positives = 15/28 (53%), Gaps = 6/28 (21%)
Query: 100 IAQRRCEVCGGSGLVLREKDYFKCPECG 127
I +R+C CG +E Y +CP CG
Sbjct: 624 IGRRKCPSCG------KETFYRRCPFCG 645
Score = 26.8 bits (60), Expect = 4.0
Identities = 11/30 (36%), Positives = 12/30 (40%), Gaps = 5/30 (16%)
Query: 102 QRRCEVCGGSGLVLREKDYFKCPECGMSYG 131
RRC CG E Y CP CG+
Sbjct: 638 YRRCPFCGT----HTEPVYR-CPRCGIEVE 662
>gnl|CDD|237653 PRK14276, PRK14276, chaperone protein DnaJ; Provisional.
Length = 380
Score = 29.3 bits (66), Expect = 0.60
Identities = 9/30 (30%), Positives = 14/30 (46%), Gaps = 4/30 (13%)
Query: 98 RIIAQRRCEVCGGSGLVLREKDYFKCPECG 127
+ Q C+VC G+G ++E C C
Sbjct: 185 MMRRQVTCDVCHGTGKEIKE----PCQTCH 210
>gnl|CDD|153084 cd01675, RNR_III, Class III ribonucleotide reductase.
Ribonucleotide reductase (RNR) catalyzes the reductive
synthesis of deoxyribonucleotides from their
corresponding ribonucleotides. It provides the
precursors necessary for DNA synthesis. RNRs are
separated into three classes based on their
metallocofactor usage. Class I RNRs, found in
eukaryotes, bacteria, and bacteriophage, use a
diiron-tyrosyl radical. Class II RNRs, found in
bacteria, bacteriophage, algae and archaea, use coenzyme
B12 (adenosylcobalamin, AdoCbl). Class III RNRs, found
in strict or facultative anaerobic bacteria,
bacteriophage, and archaea, use an FeS cluster and
S-adenosylmethionine to generate a glycyl radical. Many
organisms have more than one class of RNR present in
their genomes. All three RNRs have a ten-stranded
alpha-beta barrel domain that is structurally similar to
the domain of PFL (pyruvate formate lyase). The class
III enzyme from phage T4 consists of two subunits, this
model covers the larger subunit which contains the
active and allosteric sites.
Length = 555
Score = 28.8 bits (65), Expect = 0.74
Identities = 11/24 (45%), Positives = 13/24 (54%), Gaps = 4/24 (16%)
Query: 104 RCEVCGGSGLVLREKDYFKCPECG 127
C CG G E + FKCP+CG
Sbjct: 520 ICNDCGYIG----EGEGFKCPKCG 539
>gnl|CDD|237742 PRK14513, PRK14513, ATP-dependent Clp protease proteolytic subunit;
Provisional.
Length = 201
Score = 28.7 bits (64), Expect = 0.77
Identities = 10/17 (58%), Positives = 12/17 (70%)
Query: 117 EKDYFKCPECGMSYGLI 133
E+DYF PE +YGLI
Sbjct: 170 ERDYFMSPEEAKAYGLI 186
>gnl|CDD|184599 PRK14277, PRK14277, chaperone protein DnaJ; Provisional.
Length = 386
Score = 28.6 bits (64), Expect = 1.00
Identities = 10/30 (33%), Positives = 16/30 (53%), Gaps = 4/30 (13%)
Query: 98 RIIAQRRCEVCGGSGLVLREKDYFKCPECG 127
RI+ R C+ C G G ++ + C +CG
Sbjct: 194 RIVNIRTCDRCHGEGKIITD----PCNKCG 219
>gnl|CDD|237142 PRK12570, PRK12570, N-acetylmuramic acid-6-phosphate etherase;
Reviewed.
Length = 296
Score = 28.5 bits (64), Expect = 1.0
Identities = 11/26 (42%), Positives = 20/26 (76%), Gaps = 1/26 (3%)
Query: 77 IIVG-AIAGVTPFVVAGIEFSKRIIA 101
++VG A +G TP+V+ +E++K+I A
Sbjct: 130 VVVGIAASGRTPYVIGALEYAKQIGA 155
>gnl|CDD|233891 TIGR02487, NrdD, anaerobic ribonucleoside-triphosphate reductase.
This model represents the oxygen-sensitive (anaerobic,
class III) ribonucleotide reductase. The mechanism of
the enzyme involves a glycine-centered radical , a
C-terminal zinc binding site , and a set of conserved
active site cysteines and asparagines. This enzyme
requires an activating component, NrdG, a radical-SAM
domain containing enzyme (TIGR02491). Together the two
form an alpha-2/beta-2 heterodimer [Purines,
pyrimidines, nucleosides, and nucleotides,
2'-Deoxyribonucleotide metabolism].
Length = 579
Score = 28.5 bits (64), Expect = 1.2
Identities = 11/25 (44%), Positives = 13/25 (52%), Gaps = 4/25 (16%)
Query: 103 RRCEVCGGSGLVLREKDYFKCPECG 127
CE CG +G E KCP+CG
Sbjct: 525 DVCEDCGYTG----EGLNDKCPKCG 545
>gnl|CDD|233829 TIGR02349, DnaJ_bact, chaperone protein DnaJ. This model
represents bacterial forms of DnaJ, part of the
DnaK-DnaJ-GrpE chaperone system. The three components
typically are encoded by consecutive genes. DnaJ
homologs occur in many genomes, typically not near DnaK
and GrpE-like genes; most such genes are not included by
this family. Eukaryotic (mitochondrial and chloroplast)
forms are not included in the scope of this family.
Length = 354
Score = 28.3 bits (64), Expect = 1.3
Identities = 9/26 (34%), Positives = 13/26 (50%), Gaps = 4/26 (15%)
Query: 102 QRRCEVCGGSGLVLREKDYFKCPECG 127
Q+ C CGG G +++E C C
Sbjct: 186 QQTCPTCGGEGKIIKE----PCSTCK 207
Score = 25.6 bits (57), Expect = 9.7
Identities = 14/38 (36%), Positives = 17/38 (44%), Gaps = 1/38 (2%)
Query: 90 VAGIEFSKRIIAQRRCEVCGGSGLVLREKDYFKCPECG 127
V G+E I + CE C G+G D CP CG
Sbjct: 131 VFGVEKEIEIPRKESCETCHGTGAK-PGTDPKTCPTCG 167
>gnl|CDD|237668 PRK14301, PRK14301, chaperone protein DnaJ; Provisional.
Length = 373
Score = 27.8 bits (62), Expect = 1.7
Identities = 11/26 (42%), Positives = 15/26 (57%), Gaps = 4/26 (15%)
Query: 105 CEVCGGSGLVLREKDYFK----CPEC 126
C CGGSG V + + +F+ CP C
Sbjct: 164 CRHCGGSGQVRQSQGFFQIAVPCPVC 189
>gnl|CDD|206049 pfam13878, zf-C2H2_3, zinc-finger of acetyl-transferase ESCO.
Length = 41
Score = 25.7 bits (57), Expect = 1.7
Identities = 5/9 (55%), Positives = 5/9 (55%)
Query: 122 KCPECGMSY 130
C CGM Y
Sbjct: 15 TCSTCGMLY 23
>gnl|CDD|132709 TIGR03670, rpoB_arch, DNA-directed RNA polymerase subunit B. This
model represents the archaeal version of DNA-directed
RNA polymerase subunit B (rpoB) and is observed in all
archaeal genomes.
Length = 599
Score = 28.1 bits (63), Expect = 1.7
Identities = 12/35 (34%), Positives = 13/35 (37%), Gaps = 9/35 (25%)
Query: 105 CEVCGGSGLVLREKDYFKCPECG---------MSY 130
CE CG + K CP CG MSY
Sbjct: 541 CENCGHIAWEDKRKGTAYCPVCGETGDISPVEMSY 575
>gnl|CDD|222758 pfam14446, Prok-RING_1, Prokaryotic RING finger family 1. RING
finger family found sporadically in bacteria and
archaea, and associated in gene neighborhoods with other
components of the ubiquitin-based signaling and
degradation system, including ubiquitin, the E1 and E2
proteins and the JAB-like metallopeptidase. The
bacterial versions contain transmembrane helices.
Length = 55
Score = 25.9 bits (57), Expect = 2.4
Identities = 12/27 (44%), Positives = 12/27 (44%), Gaps = 2/27 (7%)
Query: 104 RCEVCGGSGLVLREKDYFKCPECGMSY 130
RC VCG D CPECG Y
Sbjct: 7 RCPVCGKK--FKPGDDIVVCPECGAPY 31
>gnl|CDD|163543 TIGR03831, YgiT_finger, YgiT-type zinc finger domain. This domain
model describes a small domain with two copies of a
putative zinc-binding motif CXXC (usually CXXCG). Most
member proteins consist largely of this domain or else
carry an additional C-terminal helix-turn-helix domain,
resembling that of the phage protein Cro and modeled by
pfam01381.
Length = 46
Score = 25.4 bits (56), Expect = 2.5
Identities = 10/42 (23%), Positives = 13/42 (30%), Gaps = 16/42 (38%)
Query: 105 CEVCGGSGLVLREKDY----------------FKCPECGMSY 130
C +CGG L + CP+CG Y
Sbjct: 1 CPICGGEELEGKTTTETYEYGGELIVIENVPALVCPQCGEEY 42
>gnl|CDD|223256 COG0178, UvrA, Excinuclease ATPase subunit [DNA replication,
recombination, and repair].
Length = 935
Score = 27.5 bits (62), Expect = 2.7
Identities = 10/28 (35%), Positives = 12/28 (42%), Gaps = 5/28 (17%)
Query: 104 RCEVCGGSGLVLREKD-----YFKCPEC 126
RCE C G G++ E Y C C
Sbjct: 732 RCEACQGDGVIKIEMHFLPDVYVPCEVC 759
>gnl|CDD|237661 PRK14291, PRK14291, chaperone protein DnaJ; Provisional.
Length = 382
Score = 27.0 bits (60), Expect = 2.8
Identities = 10/23 (43%), Positives = 11/23 (47%), Gaps = 1/23 (4%)
Query: 105 CEVCGGSGLVLREKDYFKCPECG 127
CE CGG+G CP CG
Sbjct: 159 CEACGGTG-YDPGSGEKVCPTCG 180
Score = 27.0 bits (60), Expect = 3.3
Identities = 11/29 (37%), Positives = 16/29 (55%), Gaps = 4/29 (13%)
Query: 103 RRCEVCGGSGLVLREKDYFK----CPECG 127
+ C CGGSG + + +F+ CP CG
Sbjct: 174 KVCPTCGGSGEIYQRGGFFRISQTCPTCG 202
>gnl|CDD|172773 PRK14285, PRK14285, chaperone protein DnaJ; Provisional.
Length = 365
Score = 27.3 bits (60), Expect = 2.9
Identities = 10/26 (38%), Positives = 16/26 (61%), Gaps = 4/26 (15%)
Query: 105 CEVCGGSGLVLREKDYFK----CPEC 126
C +C GSG V++ +F+ CP+C
Sbjct: 166 CNMCNGSGRVMQGGGFFRVTTTCPKC 191
>gnl|CDD|237846 PRK14876, PRK14876, conjugal transfer mating pair stabilization
protein TraN; Provisional.
Length = 928
Score = 27.1 bits (60), Expect = 2.9
Identities = 12/21 (57%), Positives = 14/21 (66%), Gaps = 2/21 (9%)
Query: 27 YCKSKVEFACCNRRR--CCYN 45
YCKSKV AC +R CC+N
Sbjct: 791 YCKSKVLGACIEKREAYCCFN 811
>gnl|CDD|199908 cd10719, DnaJ_zf, Zinc finger domain of DnaJ and HSP40.
Central/middle or CxxCxGxG-motif containing domain of
DnaJ/Hsp40 (heat shock protein 40). DnaJ proteins are
highly conserved and play crucial roles in protein
translation, folding, unfolding, translocation, and
degradation. They act primarily by stimulating the
ATPase activity of Hsp70s, an important chaperonin
family. Hsp40 proteins are characterized by the presence
of an N-terminal J domain, which mediates the
interaction with Hsp70. This central domain contains
four repeats of a CxxCxGxG motif and binds to two Zinc
ions. It has been implicated in substrate binding.
Length = 65
Score = 25.7 bits (57), Expect = 3.0
Identities = 9/26 (34%), Positives = 15/26 (57%), Gaps = 4/26 (15%)
Query: 102 QRRCEVCGGSGLVLREKDYFKCPECG 127
Q C CGG+G ++++ CP+C
Sbjct: 41 QTTCPTCGGTGKIIKD----PCPKCK 62
>gnl|CDD|236291 PRK08565, PRK08565, DNA-directed RNA polymerase subunit B;
Provisional.
Length = 1103
Score = 27.2 bits (61), Expect = 3.4
Identities = 9/23 (39%), Positives = 12/23 (52%)
Query: 105 CEVCGGSGLVLREKDYFKCPECG 127
CE+CG R K+ + CP G
Sbjct: 1045 CELCGHIAWYDRRKNKYVCPIHG 1067
>gnl|CDD|187811 cd09680, Cas10_III, CRISPR/Cas system-associated protein Cas10.
CRISPR (Clustered Regularly Interspaced Short
Palindromic Repeats) and associated Cas proteins
comprise a system for heritable host defense by
prokaryotic cells against phage and other foreign DNA;
Multidomain protein with permuted HD nuclease domain,
palm domain and Zn-ribbon; signature gene for type III;
also known as Csm1 family.
Length = 650
Score = 26.9 bits (60), Expect = 3.8
Identities = 9/24 (37%), Positives = 13/24 (54%)
Query: 103 RRCEVCGGSGLVLREKDYFKCPEC 126
R C+VCG + ++D CP C
Sbjct: 393 RECKVCGREEPIAEDEDEGLCPTC 416
>gnl|CDD|224487 COG1571, COG1571, Predicted DNA-binding protein containing a
Zn-ribbon domain [General function prediction only].
Length = 421
Score = 26.5 bits (59), Expect = 4.2
Identities = 8/24 (33%), Positives = 13/24 (54%), Gaps = 1/24 (4%)
Query: 104 RCEVCGGSGLVLREKDYFKCPECG 127
C CGG + ++ F+C +CG
Sbjct: 352 VCPRCGGR-MKSAGRNGFRCKKCG 374
>gnl|CDD|237663 PRK14293, PRK14293, chaperone protein DnaJ; Provisional.
Length = 374
Score = 26.5 bits (59), Expect = 4.3
Identities = 8/23 (34%), Positives = 11/23 (47%), Gaps = 4/23 (17%)
Query: 105 CEVCGGSGLVLREKDYFKCPECG 127
C C G+G V+ + C CG
Sbjct: 189 CPTCNGTGQVIED----PCDACG 207
>gnl|CDD|223383 COG0306, PitA, Phosphate/sulphate permeases [Inorganic ion
transport and metabolism].
Length = 326
Score = 26.4 bits (59), Expect = 5.9
Identities = 13/53 (24%), Positives = 24/53 (45%), Gaps = 10/53 (18%)
Query: 54 APSAASNDVSSVAGPVTA------EVTWQIIVGAIAGVTPFVVAGIEFSKRII 100
A + +NDV++ GP+ A W +++G IA + + R+I
Sbjct: 186 AFAHGANDVANAIGPLVAVLISSLPPFWVLVLGGIA----LALGTLTGGPRVI 234
>gnl|CDD|237654 PRK14278, PRK14278, chaperone protein DnaJ; Provisional.
Length = 378
Score = 26.2 bits (58), Expect = 6.3
Identities = 9/25 (36%), Positives = 11/25 (44%), Gaps = 4/25 (16%)
Query: 103 RRCEVCGGSGLVLREKDYFKCPECG 127
R C C G G V+ + C EC
Sbjct: 183 RPCPTCRGVGEVIPD----PCHECA 203
>gnl|CDD|172778 PRK14290, PRK14290, chaperone protein DnaJ; Provisional.
Length = 365
Score = 26.0 bits (57), Expect = 6.7
Identities = 11/29 (37%), Positives = 14/29 (48%), Gaps = 4/29 (13%)
Query: 98 RIIAQRRCEVCGGSGLVLREKDYFKCPEC 126
R++ C CGG G + E KCP C
Sbjct: 187 RMVTVTTCRTCGGRGRIPEE----KCPRC 211
>gnl|CDD|172774 PRK14286, PRK14286, chaperone protein DnaJ; Provisional.
Length = 372
Score = 26.1 bits (57), Expect = 7.0
Identities = 11/26 (42%), Positives = 14/26 (53%), Gaps = 4/26 (15%)
Query: 105 CEVCGGSGLVLREKDYFK----CPEC 126
C CGGSG + R + +F CP C
Sbjct: 170 CPDCGGSGQIRRTQGFFSVATTCPTC 195
>gnl|CDD|236547 PRK09521, PRK09521, exosome complex RNA-binding protein Csl4;
Provisional.
Length = 189
Score = 25.7 bits (57), Expect = 7.3
Identities = 9/24 (37%), Positives = 13/24 (54%), Gaps = 1/24 (4%)
Query: 104 RCEVCGGSGLVLREKDYFKCPECG 127
C C + LV + ++ KCP CG
Sbjct: 151 MCSRCR-TPLVKKGENELKCPNCG 173
>gnl|CDD|233960 TIGR02642, phage_xxxx, uncharacterized phage protein. This
uncharacterized protein is found in prophage regions of
Shewanella oneidensis MR-1, Vibrio vulnificus YJ016,
Yersinia pseudotuberculosis IP 32953, and Aeromonas
hydrophila ATCC7966. It appears to have regions of
sequence similarity to phage lambda antitermination
protein Q [Mobile and extrachromosomal element
functions, Prophage functions].
Length = 186
Score = 25.6 bits (56), Expect = 7.6
Identities = 8/25 (32%), Positives = 13/25 (52%), Gaps = 2/25 (8%)
Query: 103 RRCEVCGGSGLVLREKDYFKCPECG 127
+C C G+GL+ R + +C C
Sbjct: 100 CKCPRCRGTGLIQRRQR--ECDTCA 122
>gnl|CDD|237659 PRK14287, PRK14287, chaperone protein DnaJ; Provisional.
Length = 371
Score = 26.1 bits (57), Expect = 7.6
Identities = 10/30 (33%), Positives = 18/30 (60%), Gaps = 4/30 (13%)
Query: 98 RIIAQRRCEVCGGSGLVLREKDYFKCPECG 127
R++ +R C C G+G ++++ KC CG
Sbjct: 177 RVVNRRVCHHCEGTGKIIKQ----KCATCG 202
>gnl|CDD|225704 COG3162, COG3162, Predicted membrane protein [Function unknown].
Length = 102
Score = 25.0 bits (55), Expect = 7.9
Identities = 17/52 (32%), Positives = 20/52 (38%), Gaps = 9/52 (17%)
Query: 66 AGPV-TAEVTWQIIVGAIAGVTPFVVAGI-------EFSKRIIAQRRCEVCG 109
A P+ A VT I G V FV+ GI EF + EV G
Sbjct: 52 ATPLFGASVTRGIPFGVGVFVMTFVLTGIYVRRANGEFDRLNAEILE-EVKG 102
>gnl|CDD|236757 PRK10767, PRK10767, chaperone protein DnaJ; Provisional.
Length = 371
Score = 25.9 bits (58), Expect = 8.0
Identities = 7/26 (26%), Positives = 13/26 (50%), Gaps = 4/26 (15%)
Query: 102 QRRCEVCGGSGLVLREKDYFKCPECG 127
Q+ C C G G ++++ C +C
Sbjct: 181 QQTCPTCHGRGKIIKD----PCKKCH 202
>gnl|CDD|236436 PRK09263, PRK09263, anaerobic ribonucleoside triphosphate
reductase; Provisional.
Length = 711
Score = 26.0 bits (58), Expect = 8.0
Identities = 9/24 (37%), Positives = 12/24 (50%)
Query: 104 RCEVCGGSGLVLREKDYFKCPECG 127
C CG +G + F CP+CG
Sbjct: 643 ECYECGFTGEFECTEKGFTCPKCG 666
>gnl|CDD|163542 TIGR03830, CxxCG_CxxCG_HTH, putative zinc finger/helix-turn-helix
protein, YgiT family. This model describes a family of
predicted regulatory proteins with a conserved zinc
finger/HTH architecture. The amino-terminal region
contains a novel domain, featuring two CXXC motifs and
occuring in a number of small bacterial proteins as well
as in the present family. The carboxyl-terminal region
consists of a helix-turn-helix domain, modeled by
pfam01381. The predicted function is DNA binding and
transcriptional regulation.
Length = 127
Score = 25.3 bits (56), Expect = 8.1
Identities = 11/38 (28%), Positives = 13/38 (34%), Gaps = 15/38 (39%)
Query: 105 CEVCGGSGLVLREKD---------------YFKCPECG 127
C +CG LV KD + CP CG
Sbjct: 1 CPICGSGELVRDVKDEPYTYKGESITIGVPGWYCPACG 38
>gnl|CDD|235475 PRK05452, PRK05452, anaerobic nitric oxide reductase
flavorubredoxin; Provisional.
Length = 479
Score = 25.9 bits (57), Expect = 8.3
Identities = 6/10 (60%), Positives = 7/10 (70%)
Query: 119 DYFKCPECGM 128
D F CPEC +
Sbjct: 457 DNFLCPECSL 466
>gnl|CDD|216058 pfam00684, DnaJ_CXXCXGXG, DnaJ central domain. The central
cysteine-rich (CR) domain of DnaJ proteins contains four
repeats of the motif CXXCXGXG where X is any amino acid.
The isolated cysteine rich domain folds in zinc
dependent fashion. Each set of two repeats binds one
unit of zinc. Although this domain has been implicated
in substrate binding, no evidence of specific
interaction between the isolated DNAJ cysteine rich
domain and various hydrophobic peptides has been found.
Length = 65
Score = 24.3 bits (53), Expect = 9.0
Identities = 8/30 (26%), Positives = 14/30 (46%), Gaps = 4/30 (13%)
Query: 98 RIIAQRRCEVCGGSGLVLREKDYFKCPECG 127
Q+ C CGG+G ++++ C C
Sbjct: 37 VFQMQQTCPKCGGTGKIIKD----PCKVCK 62
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 0.134 0.426
Gapped
Lambda K H
0.267 0.0707 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 6,590,273
Number of extensions: 561919
Number of successful extensions: 819
Number of sequences better than 10.0: 1
Number of HSP's gapped: 816
Number of HSP's successfully gapped: 92
Length of query: 133
Length of database: 10,937,602
Length adjustment: 86
Effective length of query: 47
Effective length of database: 7,123,158
Effective search space: 334788426
Effective search space used: 334788426
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 (22.0 bits)
S2: 53 (24.2 bits)