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= 014250
(428 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2VKC|A Chain A, Solution Structure Of The B3bp Smr Domain
Length = 135
Score = 49.3 bits (116), Expect = 4e-06, Method: Composition-based stats.
Identities = 38/116 (32%), Positives = 58/116 (50%), Gaps = 9/116 (7%)
Query: 312 LHAAEAVQALQERLQKIEMQRPMNCSVSPKKVKSKNGMVCTASLESFGCMDMEVVDKQRS 371
LH + +A L IE+ +N S+ P+ V +G+ +LE M V++K+
Sbjct: 26 LHEQKMKEA--NHLAAIEIFEKVNASLLPQNVLDLHGLHVDEALEHL----MRVLEKKTE 79
Query: 372 SLRQI--QKSLQVITGIGNHSRGQAA-LPTAVKNFLSESGYRFDEARPGVITVRPK 424
+Q + L VITG GNHS+G A + AV +L +RF E +PG + V K
Sbjct: 80 EFKQNGGKPYLSVITGRGNHSQGGVARIKPAVIKYLISHSFRFSEIKPGCLKVMLK 135
>pdb|2D9I|A Chain A, Solution Structure Of The Smr Domain Of Nedd4-Binding
Protein 2
Length = 96
Score = 42.7 bits (99), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 35/119 (29%), Positives = 48/119 (40%), Gaps = 46/119 (38%)
Query: 307 LDLHGLHAAEAVQALQERLQKIEMQRPMNCSVSPKKVKSKNGMVCTASLESFGCMDMEVV 366
LDLHGLH EA++ L M V+
Sbjct: 11 LDLHGLHVDEALEHL-----------------------------------------MRVL 29
Query: 367 DKQRSSLRQ--IQKSLQVITGIGNHSRGQAAL--PTAVKNFLSESGYRFDEARPGVITV 421
+K+ +Q + L VITG GNHS+G A P +K +S S +RF E +PG + V
Sbjct: 30 EKKTEEFKQNGGKPYLSVITGRGNHSQGGVARIKPAVIKYLISHS-FRFSEIKPGCLKV 87
>pdb|3FAU|A Chain A, Crystal Structure Of Human Small-Muts Related Domain
pdb|3FAU|B Chain B, Crystal Structure Of Human Small-Muts Related Domain
pdb|3FAU|C Chain C, Crystal Structure Of Human Small-Muts Related Domain
pdb|3FAU|D Chain D, Crystal Structure Of Human Small-Muts Related Domain
Length = 82
Score = 42.0 bits (97), Expect = 7e-04, Method: Composition-based stats.
Identities = 35/121 (28%), Positives = 48/121 (39%), Gaps = 44/121 (36%)
Query: 307 LDLHGLHAAEAVQALQERLQKIEMQRPMNCSVSPKKVKSKNGMVCTASLESFGCMDMEVV 366
LDLHGLH EA++ L M V+
Sbjct: 3 LDLHGLHVDEALEHL-----------------------------------------MRVL 21
Query: 367 DKQRSSLRQI--QKSLQVITGIGNHSRGQAA-LPTAVKNFLSESGYRFDEARPGVITVRP 423
+K+ +Q + L VITG GNHS+G A + AV +L +RF E +PG + V
Sbjct: 22 EKKTEEFKQNGGKPYLSVITGRGNHSQGGVARIKPAVIKYLISHSFRFSEIKPGCLKVML 81
Query: 424 K 424
K
Sbjct: 82 K 82
>pdb|4E51|A Chain A, Crystal Structure Of A Histidyl-Trna Synthetase Hisrs From
Burkholderia Thailandensis Bound To Histidine
pdb|4E51|B Chain B, Crystal Structure Of A Histidyl-Trna Synthetase Hisrs From
Burkholderia Thailandensis Bound To Histidine
Length = 467
Score = 30.8 bits (68), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 24/87 (27%), Positives = 38/87 (43%), Gaps = 16/87 (18%)
Query: 172 LEKALDLSNLS-------------TTTGDGVNDNFIESVDVRASSVINVSDKDDGMKSIM 218
L + LD NL+ T G D IE + + ++ + G++ I+
Sbjct: 284 LVRGLDYYNLTVFEWVTDKLGAQGTVAAGGRYDPLIEQLGGKPTAACGWAM---GIERIL 340
Query: 219 ERLSSLPIEPEWEEDDVYLVHRKDAMK 245
E L + PE E DVY+VH+ DA +
Sbjct: 341 ELLKEEHLVPEQEGVDVYVVHQGDAAR 367
>pdb|1EI3|A Chain A, Crystal Structure Of Native Chicken Fibrinogen
pdb|1EI3|D Chain D, Crystal Structure Of Native Chicken Fibrinogen
Length = 491
Score = 30.4 bits (67), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 27/113 (23%), Positives = 52/113 (46%), Gaps = 15/113 (13%)
Query: 22 QGLAPETDKDSYPPISSTLTSLRNCENVSRNTDVLVKPFSSVLRPSVEFPTLTEENECDY 81
QG+ +TD++ I + L + +N + ++ ++ ++L+P +E +EN
Sbjct: 53 QGIIDDTDQNYSQRIDNIRQQLADSQNKYKTSNRVIVETINILKPGLEGAQQLDEN---- 108
Query: 82 KGKHGHKAIEQHSRDLALK--------KLKALHSWADNSLIEDLMEAVDNDIK 126
+GH + E R + LK ++KAL + ++E VD DIK
Sbjct: 109 ---YGHVSTELRRRIVTLKQRVATQVNRIKALQNSIQEQVVEMKRLEVDIDIK 158
>pdb|1M1J|A Chain A, Crystal Structure Of Native Chicken Fibrinogen With Two
Different Bound Ligands
pdb|1M1J|D Chain D, Crystal Structure Of Native Chicken Fibrinogen With Two
Different Bound Ligands
Length = 491
Score = 30.4 bits (67), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 27/113 (23%), Positives = 52/113 (46%), Gaps = 15/113 (13%)
Query: 22 QGLAPETDKDSYPPISSTLTSLRNCENVSRNTDVLVKPFSSVLRPSVEFPTLTEENECDY 81
QG+ +TD++ I + L + +N + ++ ++ ++L+P +E +EN
Sbjct: 53 QGIIDDTDQNYSQRIDNIRQQLADSQNKYKTSNRVIVETINILKPGLEGAQQLDEN---- 108
Query: 82 KGKHGHKAIEQHSRDLALK--------KLKALHSWADNSLIEDLMEAVDNDIK 126
+GH + E R + LK ++KAL + ++E VD DIK
Sbjct: 109 ---YGHVSTELRRRIVTLKQRVATQVNRIKALQNSIQEQVVEMKRLEVDIDIK 158
>pdb|1MRZ|A Chain A, Crystal Structure Of A Flavin Binding Protein From
Thermotoga Maritima, Tm379
pdb|1MRZ|B Chain B, Crystal Structure Of A Flavin Binding Protein From
Thermotoga Maritima, Tm379
pdb|1T6X|A Chain A, Crystal Structure Of Adp Bound Tm379
pdb|1T6X|B Chain B, Crystal Structure Of Adp Bound Tm379
pdb|1T6Y|A Chain A, Crystal Structure Of Adp, Amp, And Fmn Bound Tm379
pdb|1T6Y|B Chain B, Crystal Structure Of Adp, Amp, And Fmn Bound Tm379
pdb|1T6Z|A Chain A, Crystal Structure Of Riboflavin Bound Tm379
pdb|1T6Z|B Chain B, Crystal Structure Of Riboflavin Bound Tm379
pdb|1S4M|A Chain A, Crystal Structure Of Flavin Binding To Fad Synthetase From
Thermotoga Maritina
pdb|1S4M|B Chain B, Crystal Structure Of Flavin Binding To Fad Synthetase From
Thermotoga Maritina
Length = 293
Score = 29.3 bits (64), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 15/51 (29%), Positives = 28/51 (54%)
Query: 93 HSRDLALKKLKALHSWADNSLIEDLMEAVDNDIKRASNLLEGMVSSSGSAE 143
+ + L L+ LK + IE+L A+D D+K A N+++ +++S E
Sbjct: 242 YGQRLKLEVLKFMRDEKKFDSIEELKAAIDQDVKSARNMIDDIINSKFEKE 292
>pdb|1WQF|A Chain A, Crystal Structure Of Ribosome Recycling Factor From
Mycobacterium Tuberculosis
pdb|1WQG|A Chain A, Crystal Structure Of Ribosome Recycling Factor From
Mycobacterium Tuberculosis
pdb|1WQH|A Chain A, Crystal Structure Of Ribosome Recycling Factor From
Mycobacterium Tuberculosis
Length = 185
Score = 29.3 bits (64), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 21/66 (31%), Positives = 31/66 (46%), Gaps = 2/66 (3%)
Query: 43 LRNCENVSRNTDVLVKPFSSVLRPSVEFPTLTEE--NECDYKGKHGHKAIEQHSRDLALK 100
LR E RN+D+ V P + V P LTEE E + KH + + R++ K
Sbjct: 75 LRAIETAIRNSDLGVNPTNDGALIRVAVPQLTEERRRELVKQAKHKGEEAKVSVRNIRRK 134
Query: 101 KLKALH 106
++ LH
Sbjct: 135 AMEELH 140
>pdb|3KDS|E Chain E, Apo-ftsh Crystal Structure
pdb|3KDS|F Chain F, Apo-ftsh Crystal Structure
pdb|3KDS|G Chain G, Apo-ftsh Crystal Structure
Length = 465
Score = 28.9 bits (63), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 19/53 (35%), Positives = 27/53 (50%), Gaps = 2/53 (3%)
Query: 94 SRDLALKKLKALHSW--ADNSLIEDLMEAVDNDIKRASNLLEGMVSSSGSAEE 144
SR+ L KL AL A+ + D+ NDI+RA+ + MV G +EE
Sbjct: 323 SRNELLDKLTALLGGRAAEEVVFGDVTSGAANDIERATEIARNMVCQLGMSEE 375
>pdb|2CE7|A Chain A, Edta Treated
pdb|2CE7|B Chain B, Edta Treated
pdb|2CE7|C Chain C, Edta Treated
pdb|2CE7|D Chain D, Edta Treated
pdb|2CE7|E Chain E, Edta Treated
pdb|2CE7|F Chain F, Edta Treated
pdb|2CEA|A Chain A, Cell Division Protein Ftsh
pdb|2CEA|B Chain B, Cell Division Protein Ftsh
pdb|2CEA|C Chain C, Cell Division Protein Ftsh
pdb|2CEA|D Chain D, Cell Division Protein Ftsh
pdb|2CEA|E Chain E, Cell Division Protein Ftsh
pdb|2CEA|F Chain F, Cell Division Protein Ftsh
Length = 476
Score = 28.5 bits (62), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 19/53 (35%), Positives = 27/53 (50%), Gaps = 2/53 (3%)
Query: 94 SRDLALKKLKALHSW--ADNSLIEDLMEAVDNDIKRASNLLEGMVSSSGSAEE 144
SR+ L KL AL A+ + D+ NDI+RA+ + MV G +EE
Sbjct: 323 SRNELLDKLTALLGGRAAEEVVFGDVTSGAANDIERATEIARNMVCQLGMSEE 375
>pdb|2VNC|A Chain A, Crystal Structure Of Glycogen Debranching Enzyme Trex From
Sulfolobus Solfataricus
pdb|2VNC|B Chain B, Crystal Structure Of Glycogen Debranching Enzyme Trex From
Sulfolobus Solfataricus
pdb|2VR5|A Chain A, Crystal Structure Of Trex From Sulfolobus Solfataricus In
Complex With Acarbose Intermediate And Glucose
pdb|2VR5|B Chain B, Crystal Structure Of Trex From Sulfolobus Solfataricus In
Complex With Acarbose Intermediate And Glucose
pdb|2VUY|A Chain A, Crystal Structure Of Glycogen Debranching Exzyme Trex From
Sulfolobus Solfatarius
pdb|2VUY|B Chain B, Crystal Structure Of Glycogen Debranching Exzyme Trex From
Sulfolobus Solfatarius
Length = 718
Score = 28.1 bits (61), Expect = 9.6, Method: Compositional matrix adjust.
Identities = 12/38 (31%), Positives = 20/38 (52%)
Query: 279 EWLIAERLNSKAAKEILGIRNSENDMWKLDLHGLHAAE 316
E L+ N K KEI+ ++N D+W + + GL +
Sbjct: 44 ELLLYSLTNQKYPKEIIEVKNKTGDIWHVFVPGLRPGQ 81
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
0.312 0.127 0.358
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,691,779
Number of Sequences: 62578
Number of extensions: 434842
Number of successful extensions: 864
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 855
Number of HSP's gapped (non-prelim): 16
length of query: 428
length of database: 14,973,337
effective HSP length: 102
effective length of query: 326
effective length of database: 8,590,381
effective search space: 2800464206
effective search space used: 2800464206
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 53 (25.0 bits)