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= 038365
(148 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3IC1|A Chain A, Crystal Structure Of Zinc-Bound Succinyl-Diaminopimelate
Desuccinylase From Haemophilus Influenzae
pdb|3IC1|B Chain B, Crystal Structure Of Zinc-Bound Succinyl-Diaminopimelate
Desuccinylase From Haemophilus Influenzae
pdb|3ISZ|A Chain A, Crystal Structure Of Mono-zinc Form Of
Succinyl-diaminopimelate Desuccinylase From Haemophilus
Influenzae
pdb|3ISZ|B Chain B, Crystal Structure Of Mono-zinc Form Of
Succinyl-diaminopimelate Desuccinylase From Haemophilus
Influenzae
Length = 377
Score = 28.1 bits (61), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 16/41 (39%), Positives = 19/41 (46%)
Query: 76 LIESDEDVLWKANVRETNEEVAARGLKFMNCMTGSDSSSTN 116
LI SDE+ K E + AR K CM G SS+ N
Sbjct: 129 LITSDEEATAKDGTIHVVETLMARDEKITYCMVGEPSSAKN 169
>pdb|4H2K|A Chain A, Crystal Structure Of The Catalytic Domain Of
Succinyl-Diaminopimelate Desuccinylase From Haemophilus
Influenzae
pdb|4H2K|B Chain B, Crystal Structure Of The Catalytic Domain Of
Succinyl-Diaminopimelate Desuccinylase From Haemophilus
Influenzae
Length = 269
Score = 27.7 bits (60), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 16/42 (38%), Positives = 19/42 (45%)
Query: 76 LIESDEDVLWKANVRETNEEVAARGLKFMNCMTGSDSSSTNY 117
LI SDE+ K E + AR K CM G SS+ N
Sbjct: 132 LITSDEEATAKDGTIHVVETLMARDEKITYCMVGEPSSAKNL 173
>pdb|2OQP|A Chain A, Solution Structure Of Human Interleukin-21
pdb|3TGX|B Chain B, Il-21:il21r Complex
pdb|3TGX|D Chain D, Il-21:il21r Complex
pdb|3TGX|F Chain F, Il-21:il21r Complex
pdb|3TGX|H Chain H, Il-21:il21r Complex
pdb|3TGX|J Chain J, Il-21:il21r Complex
pdb|3TGX|L Chain L, Il-21:il21r Complex
pdb|3TGX|N Chain N, Il-21:il21r Complex
pdb|3TGX|P Chain P, Il-21:il21r Complex
Length = 134
Score = 27.3 bits (59), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 13/32 (40%), Positives = 18/32 (56%)
Query: 12 EKQMVRHAQGLHNVDGDKNYKAYLSPEYFDAP 43
++ M+R Q + VD KNY L PE+ AP
Sbjct: 5 DRHMIRMRQLIDIVDQLKNYVNDLVPEFLPAP 36
>pdb|1GXD|C Chain C, Prommp-2TIMP-2 Complex
pdb|1GXD|D Chain D, Prommp-2TIMP-2 Complex
pdb|1BR9|A Chain A, Human Tissue Inhibitor Of Metalloproteinase-2
Length = 194
Score = 26.9 bits (58), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 20/46 (43%), Gaps = 2/46 (4%)
Query: 77 IESDEDVLWKANVRETNEEVAARGLKFMNCMTGSDSSSTNYPGKIP 122
I S ++ LW V E N + KF C+ SD S Y G P
Sbjct: 140 ISSPDECLWMDWVTEKN--INGHQAKFFACIKRSDGSCAWYRGAAP 183
>pdb|1BQQ|T Chain T, Crystal Structure Of The Mt1-Mmp--Timp-2 Complex
pdb|1BUV|T Chain T, Crystal Structure Of The Mt1-Mmp-Timp-2 Complex
Length = 184
Score = 26.9 bits (58), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 20/46 (43%), Gaps = 2/46 (4%)
Query: 77 IESDEDVLWKANVRETNEEVAARGLKFMNCMTGSDSSSTNYPGKIP 122
I S ++ LW V E N + KF C+ SD S Y G P
Sbjct: 140 ISSPDECLWMDWVTEKN--INGHQAKFFACIKRSDGSCAWYRGAAP 183
>pdb|1JW1|A Chain A, Crystallization And Structure Determination Of Goat
Lactoferrin At 4.0 Resolution: A New Form Of Packing In
Lactoferrins With A High Solvent Content In Crystals
Length = 689
Score = 26.6 bits (57), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 12/27 (44%), Positives = 16/27 (59%)
Query: 88 NVRETNEEVAARGLKFMNCMTGSDSSS 114
N+RET EEV AR + + C G + S
Sbjct: 330 NLRETAEEVKARCTRVVWCAVGPEEQS 356
>pdb|1D8W|A Chain A, L-Rhamnose Isomerase
pdb|1D8W|B Chain B, L-Rhamnose Isomerase
pdb|1D8W|C Chain C, L-Rhamnose Isomerase
pdb|1D8W|D Chain D, L-Rhamnose Isomerase
Length = 426
Score = 26.2 bits (56), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 11/25 (44%), Positives = 17/25 (68%)
Query: 107 MTGSDSSSTNYPGKIPSALDLPADI 131
+TG ++ NYPGK +A +L AD+
Sbjct: 62 LTGGIQATGNYPGKARNASELRADL 86
>pdb|1DE5|A Chain A, L-Rhamnose Isomerase
pdb|1DE5|B Chain B, L-Rhamnose Isomerase
pdb|1DE5|C Chain C, L-Rhamnose Isomerase
pdb|1DE5|D Chain D, L-Rhamnose Isomerase
pdb|1DE6|A Chain A, L-Rhamnose Isomerase
pdb|1DE6|B Chain B, L-Rhamnose Isomerase
pdb|1DE6|C Chain C, L-Rhamnose Isomerase
pdb|1DE6|D Chain D, L-Rhamnose Isomerase
Length = 426
Score = 26.2 bits (56), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 11/25 (44%), Positives = 17/25 (68%)
Query: 107 MTGSDSSSTNYPGKIPSALDLPADI 131
+TG ++ NYPGK +A +L AD+
Sbjct: 62 LTGGIQATGNYPGKARNASELRADL 86
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
0.314 0.131 0.388
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,731,295
Number of Sequences: 62578
Number of extensions: 188842
Number of successful extensions: 342
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 336
Number of HSP's gapped (non-prelim): 10
length of query: 148
length of database: 14,973,337
effective HSP length: 90
effective length of query: 58
effective length of database: 9,341,317
effective search space: 541796386
effective search space used: 541796386
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 47 (22.7 bits)