BLASTP 2.2.26 [Sep-21-2011]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= 030304
(179 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1WFL|A Chain A, Solution Structure Of The Zf-An1 Domain From Mouse Zinc
Finger Protein 216
Length = 74
Score = 76.6 bits (187), Expect = 7e-15, Method: Compositional matrix adjust.
Identities = 35/53 (66%), Positives = 40/53 (75%), Gaps = 4/53 (7%)
Query: 112 KAKEGPK----RCTTCNKRVGLTGFNCRCGNLFCAVHRYSDKHGCPFDYRTAA 160
KA E PK RC C K+VGLTGF+CRCGNLFC +HRYSDKH CP+DY+ A
Sbjct: 16 KAPELPKPKKNRCFMCRKKVGLTGFDCRCGNLFCGLHRYSDKHNCPYDYKAEA 68
>pdb|1WFF|A Chain A, Solution Structure Of The Zf-An1 Domain From Mouse Riken
Cdna 2810002d23 Protein
Length = 85
Score = 68.9 bits (167), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 30/54 (55%), Positives = 38/54 (70%), Gaps = 1/54 (1%)
Query: 118 KRCTTCNKRVGL-TGFNCRCGNLFCAVHRYSDKHGCPFDYRTAAREAIAKANPV 170
K C C K+ GL T F CRCGN FCA HRY++ HGC +DY++A R + +ANPV
Sbjct: 26 KHCFLCGKKTGLATSFECRCGNNFCASHRYAEAHGCNYDYKSAGRRYLEEANPV 79
>pdb|1WFH|A Chain A, Solution Structrue Of The Zf-An1 Domain From Arabidopsis
Thaliana At2g36320 Protein
Length = 64
Score = 67.4 bits (163), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 28/44 (63%), Positives = 32/44 (72%)
Query: 117 PKRCTTCNKRVGLTGFNCRCGNLFCAVHRYSDKHGCPFDYRTAA 160
P RCT C KRVGLTGF CRCG FC HRY + HGC FD+++A
Sbjct: 15 PNRCTVCRKRVGLTGFMCRCGTTFCGSHRYPEVHGCTFDFKSAG 58
>pdb|1WFP|A Chain A, Solution Structure Of The Zf-an1 Domain From Arabiopsis
Thaliana F5o11.17 Protein
Length = 74
Score = 62.0 bits (149), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 24/42 (57%), Positives = 31/42 (73%)
Query: 119 RCTTCNKRVGLTGFNCRCGNLFCAVHRYSDKHGCPFDYRTAA 160
RC +CNK+VG+TGF CRCG+ FC HRY + H C FD++ A
Sbjct: 27 RCLSCNKKVGVTGFKCRCGSTFCGTHRYPESHECQFDFKGVA 68
>pdb|1WG2|A Chain A, Solution Structure Of Zf-An1 Domain From Arabidopsis
Thaliana
Length = 64
Score = 57.4 bits (137), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 22/42 (52%), Positives = 30/42 (71%)
Query: 119 RCTTCNKRVGLTGFNCRCGNLFCAVHRYSDKHGCPFDYRTAA 160
RC +CNK+VG+ GF C+CG+ FC HRY +KH C FD++
Sbjct: 17 RCFSCNKKVGVMGFKCKCGSTFCGSHRYPEKHECSFDFKEVG 58
>pdb|2KZY|A Chain A, Solution Nmr Structure Of The Znf216 A20 Zinc Finger
pdb|2L00|A Chain A, Solution Structure Of The Non-Covalent Complex Of The
Znf216 A20 Domain With Ubiquitin
Length = 62
Score = 38.1 bits (87), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 17/39 (43%), Positives = 24/39 (61%), Gaps = 1/39 (2%)
Query: 18 QAPEGPILCVNNCGFFGSAATMNMCSKCHKAMILNQEQA 56
Q P GP+LC CGF+G+ T MCS C+K + Q+ +
Sbjct: 9 QTP-GPMLCSTGCGFYGNPRTNGMCSVCYKEHLQRQQNS 46
>pdb|1X4W|A Chain A, Solution Structure Of The Zf-An1 Domain From Human
Hypothetical Protein Flj13222
Length = 67
Score = 37.7 bits (86), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 16/42 (38%), Positives = 25/42 (59%), Gaps = 3/42 (7%)
Query: 118 KRCTTCNKRVGLTGF---NCRCGNLFCAVHRYSDKHGCPFDY 156
+RC C ++ L +CRCG +FC +HR ++H C FD+
Sbjct: 16 RRCFQCQTKLELVQQELGSCRCGYVFCMLHRLPEQHDCTFDH 57
>pdb|2FID|B Chain B, Crystal Structure Of A Bovine Rabex-5 Fragment Complexed
With Ubiquitin
pdb|2FIF|B Chain B, Crystal Structure Of A Bovine Rabex-5 Fragment Complexed
With Ubiquitin
pdb|2FIF|D Chain D, Crystal Structure Of A Bovine Rabex-5 Fragment Complexed
With Ubiquitin
pdb|2FIF|F Chain F, Crystal Structure Of A Bovine Rabex-5 Fragment Complexed
With Ubiquitin
Length = 70
Score = 33.9 bits (76), Expect = 0.048, Method: Compositional matrix adjust.
Identities = 13/44 (29%), Positives = 21/44 (47%)
Query: 15 TGCQAPEGPILCVNNCGFFGSAATMNMCSKCHKAMILNQEQAQL 58
+G + +LC CG++G+ A CSKC + Q Q+
Sbjct: 5 SGIHVDQSELLCKKGCGYYGNPAWQGFCSKCWREEYHKARQKQI 48
>pdb|2C7M|A Chain A, Human Rabex-5 Residues 1-74 In Complex With Ubiquitin
pdb|2C7N|A Chain A, Human Rabex-5 Residues 1-74 In Complex With Ubiquitin
pdb|2C7N|C Chain C, Human Rabex-5 Residues 1-74 In Complex With Ubiquitin
pdb|2C7N|E Chain E, Human Rabex-5 Residues 1-74 In Complex With Ubiquitin
pdb|2C7N|G Chain G, Human Rabex-5 Residues 1-74 In Complex With Ubiquitin
pdb|2C7N|I Chain I, Human Rabex-5 Residues 1-74 In Complex With Ubiquitin
pdb|2C7N|K Chain K, Human Rabex-5 Residues 1-74 In Complex With Ubiquitin
Length = 74
Score = 33.9 bits (76), Expect = 0.055, Method: Compositional matrix adjust.
Identities = 13/46 (28%), Positives = 21/46 (45%)
Query: 13 DETGCQAPEGPILCVNNCGFFGSAATMNMCSKCHKAMILNQEQAQL 58
+ G + +LC CG++G+ A CSKC + Q Q+
Sbjct: 6 ERRGIHVDQSDLLCKKGCGYYGNPAWQGFCSKCWREEYHKARQKQI 51
>pdb|2YXX|A Chain A, Crystal Structure Analysis Of Diaminopimelate
Decarboxylate (Lysa)
Length = 386
Score = 28.9 bits (63), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 14/56 (25%), Positives = 26/56 (46%)
Query: 4 CEVEKMESHDETGCQAPEGPILCVNNCGFFGSAATMNMCSKCHKAMILNQEQAQLA 59
CE + ++D + G I+ V N G +G + N S A +L +E +++
Sbjct: 314 CESGDVIAYDRELPEVEPGDIIAVENAGAYGYTXSNNYNSTTRPAEVLVRENGRIS 369
>pdb|1Y4Z|B Chain B, The Crystal Structure Of Nitrate Reductase A, Narghi, In
Complex With The Q-Site Inhibitor Pentachlorophenol
Length = 512
Score = 28.1 bits (61), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 15/48 (31%), Positives = 22/48 (45%)
Query: 121 TTCNKRVGLTGFNCRCGNLFCAVHRYSDKHGCPFDYRTAAREAIAKAN 168
T + VGLT + + A+ Y D+ P +R AREA + N
Sbjct: 427 TRALEEVGLTEAQAQEMYRYLAIANYEDRFVVPSSHRELAREAFPEKN 474
>pdb|3EGW|B Chain B, The Crystal Structure Of The Narghi Mutant Narh - C16a
Length = 509
Score = 28.1 bits (61), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 15/48 (31%), Positives = 22/48 (45%)
Query: 121 TTCNKRVGLTGFNCRCGNLFCAVHRYSDKHGCPFDYRTAAREAIAKAN 168
T + VGLT + + A+ Y D+ P +R AREA + N
Sbjct: 427 TRALEEVGLTEAQAQEMYRYLAIANYEDRFVVPSSHRELAREAFPEKN 474
>pdb|1Q16|B Chain B, Crystal Structure Of Nitrate Reductase A, Narghi, From
Escherichia Coli
pdb|1R27|B Chain B, Crystal Structure Of Nargh Complex
pdb|1R27|D Chain D, Crystal Structure Of Nargh Complex
pdb|1SIW|B Chain B, Crystal Structure Of The Apomolybdo-Narghi
pdb|1Y5I|B Chain B, The Crystal Structure Of The Narghi Mutant Nari-K86a
pdb|1Y5L|B Chain B, The Crystal Structure Of The Narghi Mutant Nari-H66y
pdb|1Y5N|B Chain B, The Crystal Structure Of The Narghi Mutant Nari-K86a In
Complex With Pentachlorophenol
pdb|3IR5|B Chain B, Crystal Structure Of Narghi Mutant Narg-H49c
pdb|3IR6|B Chain B, Crystal Structure Of Narghi Mutant Narg-H49s
pdb|3IR7|B Chain B, Crystal Structure Of Narghi Mutant Narg-R94s
Length = 512
Score = 27.7 bits (60), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 15/48 (31%), Positives = 22/48 (45%)
Query: 121 TTCNKRVGLTGFNCRCGNLFCAVHRYSDKHGCPFDYRTAAREAIAKAN 168
T + VGLT + + A+ Y D+ P +R AREA + N
Sbjct: 427 TRALEEVGLTEAQAQEMYRYLAIANYEDRFVVPSSHRELAREAFPEKN 474
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.319 0.133 0.413
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,738,498
Number of Sequences: 62578
Number of extensions: 161602
Number of successful extensions: 319
Number of sequences better than 100.0: 26
Number of HSP's better than 100.0 without gapping: 26
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 293
Number of HSP's gapped (non-prelim): 26
length of query: 179
length of database: 14,973,337
effective HSP length: 93
effective length of query: 86
effective length of database: 9,153,583
effective search space: 787208138
effective search space used: 787208138
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 48 (23.1 bits)