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= 029172
(198 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2J8K|A Chain A, Structure Of The Fusion Of Np275 And Np276, Pentapeptide
Repeat Proteins From Nostoc Punctiforme
Length = 201
Score = 32.3 bits (72), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 17/53 (32%), Positives = 26/53 (49%)
Query: 111 AQFGSADLRKAVHVKENFRRANFTSADMRESDFSGSKFNGAYLEKAVAYKANF 163
A ADL A + R AN + AD+ ++ + GA L++AV +AN
Sbjct: 70 ANLSRADLSGATLNGADLRGANLSKADLSDAILDNAILEGAILDEAVLNQANL 122
Score = 31.2 bits (69), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 17/59 (28%), Positives = 30/59 (50%), Gaps = 5/59 (8%)
Query: 111 AQFGSADLRKAVHVKENFRRANFTSADMRESDFSG-----SKFNGAYLEKAVAYKANFT 164
A +A+L +A+ N R A+ + A++ +D SG + + A L +A +AN T
Sbjct: 120 ANLKAANLEQAILSHANIREADLSEANLEAADLSGADLAIADLHQANLHQAALERANLT 178
Score = 29.6 bits (65), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 26/62 (41%), Gaps = 10/62 (16%)
Query: 113 FGSADLRKAVHVKENFR----------RANFTSADMRESDFSGSKFNGAYLEKAVAYKAN 162
F DLR AV N AN A++ +D SG+ NGA L A KA+
Sbjct: 37 FSIVDLRGAVLENINLSGAILHGAMLDEANLQQANLSRADLSGATLNGADLRGANLSKAD 96
Query: 163 FT 164
+
Sbjct: 97 LS 98
>pdb|2G0Y|A Chain A, Crystal Structure Of A Lumenal Pentapeptide Repeat Protein
From Cyanothece Sp 51142 At 2.3 Angstrom Resolution.
Tetragonal Crystal Form
Length = 184
Score = 31.2 bits (69), Expect = 0.35, Method: Compositional matrix adjust.
Identities = 27/85 (31%), Positives = 42/85 (49%), Gaps = 6/85 (7%)
Query: 91 LADLNKYEAETRGEFGIGSA---AQFGSADLRKAVHVKENFRRANFTSADMRESDFSGSK 147
L D N EA+ RG GSA A ADL + +F+ A+ T+A + E+ +K
Sbjct: 79 LTDSNFSEADLRGAVFNGSALIGADLHGADLTNGLAYLTSFKGADLTNAVLTEAIMMRTK 138
Query: 148 FNGAYLEKA---VAYKANFTVDEIC 169
F+ A + A +A + VD++C
Sbjct: 139 FDDAKITGADFSLAVLDVYEVDKLC 163
Score = 28.1 bits (61), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 23/78 (29%), Positives = 35/78 (44%), Gaps = 15/78 (19%)
Query: 111 AQFGSADLRKAVHVKENFRRANFTSADMRESDFSGS-----KFNGAYLEKAVAYKANFTV 165
AQF +ADL + NF+ AD+R + F+GS +GA L +AY +F
Sbjct: 72 AQFTNADLTDS----------NFSEADLRGAVFNGSALIGADLHGADLTNGLAYLTSFKG 121
Query: 166 DEICLPLLVSLPMATPVF 183
++ +L M F
Sbjct: 122 ADLTNAVLTEAIMMRTKF 139
Score = 27.3 bits (59), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 32/62 (51%), Gaps = 5/62 (8%)
Query: 108 GSAAQFGSADLRKAVHVKENFRRANFTSADMRESDFS-----GSKFNGAYLEKAVAYKAN 162
GS+A + L ++ A FT+AD+ +S+FS G+ FNG+ L A + A+
Sbjct: 49 GSSASYEDVKLIGEDFSGKSLTYAQFTNADLTDSNFSEADLRGAVFNGSALIGADLHGAD 108
Query: 163 FT 164
T
Sbjct: 109 LT 110
>pdb|2F3L|A Chain A, Crystal Structure Of A Lumenal Rfr-Domain Protein
(Contig83.1_1_243_746) From Cyanothece Sp. 51142 At 2.1
Angstrom Resolution
Length = 184
Score = 30.8 bits (68), Expect = 0.51, Method: Compositional matrix adjust.
Identities = 27/85 (31%), Positives = 42/85 (49%), Gaps = 6/85 (7%)
Query: 91 LADLNKYEAETRGEFGIGSA---AQFGSADLRKAVHVKENFRRANFTSADMRESDFSGSK 147
L D N EA+ RG GSA A ADL + +F+ A+ T+A + E+ +K
Sbjct: 79 LTDSNFSEADLRGAVFNGSALIGADLHGADLTNGLAYLTSFKGADLTNAVLTEAIXXRTK 138
Query: 148 FNGAYLEKA---VAYKANFTVDEIC 169
F+ A + A +A + VD++C
Sbjct: 139 FDDAKITGADFSLAVLDVYEVDKLC 163
Score = 27.3 bits (59), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 20/58 (34%), Positives = 29/58 (50%), Gaps = 15/58 (25%)
Query: 111 AQFGSADLRKAVHVKENFRRANFTSADMRESDFSGS-----KFNGAYLEKAVAYKANF 163
AQF +ADL + NF+ AD+R + F+GS +GA L +AY +F
Sbjct: 72 AQFTNADLTDS----------NFSEADLRGAVFNGSALIGADLHGADLTNGLAYLTSF 119
Score = 27.3 bits (59), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 32/62 (51%), Gaps = 5/62 (8%)
Query: 108 GSAAQFGSADLRKAVHVKENFRRANFTSADMRESDFS-----GSKFNGAYLEKAVAYKAN 162
GS+A + L ++ A FT+AD+ +S+FS G+ FNG+ L A + A+
Sbjct: 49 GSSASYEDVKLIGEDFSGKSLTYAQFTNADLTDSNFSEADLRGAVFNGSALIGADLHGAD 108
Query: 163 FT 164
T
Sbjct: 109 LT 110
>pdb|2J8I|A Chain A, Structure Of Np275, A Pentapeptide Repeat Protein From
Nostoc Punctiforme
pdb|2J8I|B Chain B, Structure Of Np275, A Pentapeptide Repeat Protein From
Nostoc Punctiforme
Length = 118
Score = 30.0 bits (66), Expect = 0.94, Method: Compositional matrix adjust.
Identities = 20/63 (31%), Positives = 26/63 (41%), Gaps = 10/63 (15%)
Query: 112 QFGSADLRKAVHVKENFR----------RANFTSADMRESDFSGSKFNGAYLEKAVAYKA 161
F DLR AV N AN A++ +D SG+ NGA L A KA
Sbjct: 36 DFSIVDLRGAVLENINLSGAILHGAMLDEANLQQANLSRADLSGATLNGADLRGANLSKA 95
Query: 162 NFT 164
+ +
Sbjct: 96 DLS 98
Score = 28.9 bits (63), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 23/47 (48%)
Query: 111 AQFGSADLRKAVHVKENFRRANFTSADMRESDFSGSKFNGAYLEKAV 157
A ADL A + R AN + AD+ ++ + GA L++AV
Sbjct: 70 ANLSRADLSGATLNGADLRGANLSKADLSDAILDNAILEGAILDEAV 116
>pdb|3DU1|X Chain X, The 2.0 Angstrom Resolution Crystal Structure Of Hetl, A
Pentapeptide Repeat Protein Involved In Heterocyst
Differentiation Regulation From The Cyanobacterium
Nostoc Sp. Strain Pcc 7120
Length = 257
Score = 29.6 bits (65), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 16/48 (33%), Positives = 26/48 (54%)
Query: 116 ADLRKAVHVKENFRRANFTSADMRESDFSGSKFNGAYLEKAVAYKANF 163
ADL +A+ + A+ A +RE+D +G+K LE+A KA+
Sbjct: 80 ADLSEAILWGIDLSEADLYRAILREADLTGAKLVKTRLEEANLIKASL 127
Score = 28.9 bits (63), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 24/91 (26%), Positives = 36/91 (39%), Gaps = 13/91 (14%)
Query: 109 SAAQFGSADLRKAVHVKENFR-----RANF--------TSADMRESDFSGSKFNGAYLEK 155
+ A ADLR A N RANF +AD+ + G+ + A LE
Sbjct: 163 TGADLSYADLRAASLHHANLDGAKLCRANFGRTIQWGNLAADLSGASLQGADLSYANLES 222
Query: 156 AVAYKANFTVDEICLPLLVSLPMATPVFPAG 186
A+ KAN ++ +L + + P G
Sbjct: 223 AILRKANLQGADLTGAILKDAELKGAIMPDG 253
Score = 28.5 bits (62), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 26/56 (46%)
Query: 109 SAAQFGSADLRKAVHVKENFRRANFTSADMRESDFSGSKFNGAYLEKAVAYKANFT 164
+ A ADLR+ K NF AD+ E+ G + A L +A+ +A+ T
Sbjct: 53 TGADLSYADLRQTRLGKSNFSHTCLREADLSEAILWGIDLSEADLYRAILREADLT 108
>pdb|2C20|A Chain A, Crystal Structure Of Udp-Glucose 4-Epimerase
pdb|2C20|B Chain B, Crystal Structure Of Udp-Glucose 4-Epimerase
pdb|2C20|C Chain C, Crystal Structure Of Udp-Glucose 4-Epimerase
pdb|2C20|D Chain D, Crystal Structure Of Udp-Glucose 4-Epimerase
pdb|2C20|E Chain E, Crystal Structure Of Udp-Glucose 4-Epimerase
pdb|2C20|F Chain F, Crystal Structure Of Udp-Glucose 4-Epimerase
Length = 330
Score = 27.7 bits (60), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 18/71 (25%), Positives = 30/71 (42%), Gaps = 4/71 (5%)
Query: 100 ETRGEFGIGSAAQFGSADLRKAVHVKENFRRANFTSADMRESDFSGSKFNGAYLEKAVAY 159
+T E I A+F + DLR +++ F + N + F+ G +EK + Y
Sbjct: 35 QTGHEDAITEGAKFYNGDLRDKAFLRDVFTQENIEAV----MHFAADSLVGVSMEKPLQY 90
Query: 160 KANFTVDEICL 170
N +CL
Sbjct: 91 YNNNVYGALCL 101
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
0.320 0.133 0.417
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,156,520
Number of Sequences: 62578
Number of extensions: 170030
Number of successful extensions: 311
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 274
Number of HSP's gapped (non-prelim): 32
length of query: 198
length of database: 14,973,337
effective HSP length: 94
effective length of query: 104
effective length of database: 9,091,005
effective search space: 945464520
effective search space used: 945464520
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: 49 (23.5 bits)