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= 028818
(203 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2W6A|A Chain A, X-Ray Structure Of The Dimeric Git1 Coiled-Coil Domain
pdb|2W6A|B Chain B, X-Ray Structure Of The Dimeric Git1 Coiled-Coil Domain
Length = 63
Score = 31.2 bits (69), Expect = 0.43, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 26/40 (65%)
Query: 77 YSSLSDKLGQAQADKERLSKENEALTNTVRKLQRDVSKLE 116
Y L L ++A ++L K N +L++ +RKLQR++ KL+
Sbjct: 15 YLELKKALATSEAKVQQLMKVNSSLSDELRKLQREIHKLQ 54
>pdb|1SZI|A Chain A, Crystal Structure Of The C-Terminus Of Tip47
Length = 247
Score = 30.4 bits (67), Expect = 0.74, Method: Compositional matrix adjust.
Identities = 20/75 (26%), Positives = 40/75 (53%), Gaps = 1/75 (1%)
Query: 31 DVARKITSIAISTRVSDLESEHSALRSQLAEKDSRIAELQSQIESIYSSLSDKLGQAQAD 90
D+ +++ S+ ++ S ++ S +R Q + S++ +LQ+ I+S G
Sbjct: 146 DITQQLQSMCVALGAS-IQGLPSHVREQAQQARSQVNDLQATFSGIHSFQDLSAGVLAQT 204
Query: 91 KERLSKENEALTNTV 105
+ER+++ EAL NTV
Sbjct: 205 RERIARAREALDNTV 219
>pdb|1I84|S Chain S, Cryo-Em Structure Of The Heavy Meromyosin Subfragment Of
Chicken Gizzard Smooth Muscle Myosin With Regulatory
Light Chain In The Dephosphorylated State. Only C Alphas
Provided For Regulatory Light Chain. Only Backbone Atoms
Provided For S2 Fragment.
pdb|1I84|V Chain V, Cryo-Em Structure Of The Heavy Meromyosin Subfragment Of
Chicken Gizzard Smooth Muscle Myosin With Regulatory
Light Chain In The Dephosphorylated State. Only C Alphas
Provided For Regulatory Light Chain. Only Backbone Atoms
Provided For S2 Fragment
Length = 1184
Score = 28.9 bits (63), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 27/73 (36%), Positives = 39/73 (53%), Gaps = 12/73 (16%)
Query: 48 LESEHSALRSQLAEKDSRIAELQSQIESIYSSLSDKLGQAQADKERL----SKENEALTN 103
LE E S L Q IAELQ+QI + + L+ K + QA RL S++N AL
Sbjct: 1065 LEGESSDLHEQ-------IAELQAQIAELKAQLAKKEEELQAALARLEDETSQKNNAL-K 1116
Query: 104 TVRKLQRDVSKLE 116
+R+L+ +S L+
Sbjct: 1117 KIRELESHISDLQ 1129
>pdb|2DFS|A Chain A, 3-D Structure Of Myosin-V Inhibited State
pdb|2DFS|M Chain M, 3-D Structure Of Myosin-V Inhibited State
Length = 1080
Score = 28.5 bits (62), Expect = 2.4, Method: Composition-based stats.
Identities = 22/81 (27%), Positives = 44/81 (54%), Gaps = 6/81 (7%)
Query: 48 LESEHSALRSQLAEKDSRIAELQSQIESIYSSLSDKLGQAQADKERL---SKENEALTNT 104
LE++ L+ ++ E++ L ++ ++ + S + + ++D ERL +E + TN
Sbjct: 926 LENKIMQLQRKIDEQNKEYKSLLEKMNNLEITYSTETEKLRSDVERLRMSEEEAKNATNR 985
Query: 105 VRKLQRDVSKLEVFRKTLVQS 125
V LQ +++KL RK L Q+
Sbjct: 986 VLSLQEEIAKL---RKELHQT 1003
>pdb|1X9D|A Chain A, Crystal Structure Of Human Class I Alpha-1,2-Mannosidase
In Complex With Thio-Disaccharide Substrate Analogue
Length = 538
Score = 28.5 bits (62), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 14/41 (34%), Positives = 22/41 (53%), Gaps = 3/41 (7%)
Query: 161 SQISEGGNSSF---AEEREPECRSKSSSFFLNSNIKLVLCL 198
+++ GG SS + ++PE R K SFFL +K + L
Sbjct: 470 TRVPSGGYSSINNVQDPQKPEPRDKMESFFLGETLKYLFLL 510
>pdb|1E2Y|A Chain A, Tryparedoxin Peroxidase From Crithidia Fasciculata
pdb|1E2Y|B Chain B, Tryparedoxin Peroxidase From Crithidia Fasciculata
pdb|1E2Y|C Chain C, Tryparedoxin Peroxidase From Crithidia Fasciculata
pdb|1E2Y|D Chain D, Tryparedoxin Peroxidase From Crithidia Fasciculata
pdb|1E2Y|E Chain E, Tryparedoxin Peroxidase From Crithidia Fasciculata
pdb|1E2Y|F Chain F, Tryparedoxin Peroxidase From Crithidia Fasciculata
pdb|1E2Y|G Chain G, Tryparedoxin Peroxidase From Crithidia Fasciculata
pdb|1E2Y|H Chain H, Tryparedoxin Peroxidase From Crithidia Fasciculata
pdb|1E2Y|I Chain I, Tryparedoxin Peroxidase From Crithidia Fasciculata
pdb|1E2Y|J Chain J, Tryparedoxin Peroxidase From Crithidia Fasciculata
Length = 188
Score = 28.5 bits (62), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 11/24 (45%), Positives = 14/24 (58%)
Query: 133 STGATRIAKPTPNEDDAAVAPTGT 156
S GA ++ P P DD A+ P GT
Sbjct: 2 SCGAAKLNHPAPEFDDXALXPNGT 25
>pdb|1FO2|A Chain A, Crystal Structure Of Human Class I Alpha1,2-Mannosidase In
Complex With 1-Deoxymannojirimycin
pdb|1FO3|A Chain A, Crystal Structure Of Human Class I Alpha1,2-Mannosidase In
Complex With Kifunensine
Length = 460
Score = 28.1 bits (61), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 14/41 (34%), Positives = 22/41 (53%), Gaps = 3/41 (7%)
Query: 161 SQISEGGNSSF---AEEREPECRSKSSSFFLNSNIKLVLCL 198
+++ GG SS + ++PE R K SFFL +K + L
Sbjct: 392 TRVPSGGYSSINNVQDPQKPEPRDKMESFFLGETLKYLFLL 432
>pdb|1FMI|A Chain A, Crystal Structure Of Human Class I Alpha1,2-Mannosidase
Length = 458
Score = 28.1 bits (61), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 14/41 (34%), Positives = 22/41 (53%), Gaps = 3/41 (7%)
Query: 161 SQISEGGNSSF---AEEREPECRSKSSSFFLNSNIKLVLCL 198
+++ GG SS + ++PE R K SFFL +K + L
Sbjct: 392 TRVPSGGYSSINNVQDPQKPEPRDKMESFFLGETLKYLFLL 432
>pdb|1FS9|A Chain A, Cytochrome C Nitrite Reductase From Wolinella
Succinogenes-Azide Complex
Length = 507
Score = 27.7 bits (60), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 21/67 (31%), Positives = 31/67 (46%), Gaps = 5/67 (7%)
Query: 7 GAGSTFDLPEEVLQVLPSDPFEQLDVARKITSI-----AISTRVSDLESEHSALRSQLAE 61
G GS F PEEVL++L S E K+ + AI D E++ A + +
Sbjct: 399 GHGSFFHAPEEVLRLLASGNEEAQKARIKLVKVLAKYGAIDYVAPDFETKEKAQKLAKVD 458
Query: 62 KDSRIAE 68
++ IAE
Sbjct: 459 MEAFIAE 465
>pdb|4G0H|A Chain A, Crystal Structure Of The N-Terminal Domain Of Helicobacter
Pylori Caga Protein
Length = 916
Score = 27.7 bits (60), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 25/75 (33%), Positives = 35/75 (46%), Gaps = 3/75 (4%)
Query: 54 ALRSQLAEKDSRIAELQSQIESIYSSLSDKLGQAQADKERLSKENEALTNTVRKLQRDVS 113
AL ++ A +D+R ++ I LSDKL + D + SK + N K D S
Sbjct: 662 ALINKEANRDARAIAYTQNLKGIKRELSDKLEKISKDLKDFSKSFDEFKNGKNK---DFS 718
Query: 114 KLEVFRKTLVQSLKD 128
K E K L S+KD
Sbjct: 719 KAEETLKALKGSVKD 733
>pdb|3BNG|A Chain A, W. Succinogenes Nrfa Y218f
pdb|3BNH|A Chain A, W. Succinogenes Nrfa Y218f Nitrite Complex
pdb|3BNJ|A Chain A, W. Succinogenes Nrfa Y218f Sulfite Complex
Length = 485
Score = 27.7 bits (60), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 21/67 (31%), Positives = 31/67 (46%), Gaps = 5/67 (7%)
Query: 7 GAGSTFDLPEEVLQVLPSDPFEQLDVARKITSI-----AISTRVSDLESEHSALRSQLAE 61
G GS F PEEVL++L S E K+ + AI D E++ A + +
Sbjct: 377 GHGSFFHAPEEVLRLLASGNEEAQKARIKLVKVLAKYGAIDYVAPDFETKEKAQKLAKVD 436
Query: 62 KDSRIAE 68
++ IAE
Sbjct: 437 MEAFIAE 443
>pdb|1FS7|A Chain A, Cytochrome C Nitrite Reductase From Wolinella Succinogenes
pdb|1FS8|A Chain A, Cytochrome C Nitrite Reductase From Wolinella
Succinogenes-Sulfate Complex
pdb|2E80|A Chain A, Cytochrome C Nitrite Reductase From Wolinella Succinogenes
With Bound Substrate Nitrite
pdb|2E81|A Chain A, Cytochrome C Nitrite Reductase From Wolinella Succinogenes
With Bound Intermediate Hydroxylamine
pdb|3BNF|A Chain A, W. Succinogenes Nrfa Sulfite Complex
Length = 485
Score = 27.7 bits (60), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 21/67 (31%), Positives = 31/67 (46%), Gaps = 5/67 (7%)
Query: 7 GAGSTFDLPEEVLQVLPSDPFEQLDVARKITSI-----AISTRVSDLESEHSALRSQLAE 61
G GS F PEEVL++L S E K+ + AI D E++ A + +
Sbjct: 377 GHGSFFHAPEEVLRLLASGNEEAQKARIKLVKVLAKYGAIDYVAPDFETKEKAQKLAKVD 436
Query: 62 KDSRIAE 68
++ IAE
Sbjct: 437 MEAFIAE 443
>pdb|4DVY|P Chain P, Crystal Structure Of The Helicobacter Pylori Caga
Oncoprotein
Length = 876
Score = 27.7 bits (60), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 25/75 (33%), Positives = 35/75 (46%), Gaps = 3/75 (4%)
Query: 54 ALRSQLAEKDSRIAELQSQIESIYSSLSDKLGQAQADKERLSKENEALTNTVRKLQRDVS 113
AL ++ A +D+R ++ I LSDKL + D + SK + N K D S
Sbjct: 662 ALINKEANRDARAIAYTQNLKGIKRELSDKLEKISKDLKDFSKSFDEFKNGKNK---DFS 718
Query: 114 KLEVFRKTLVQSLKD 128
K E K L S+KD
Sbjct: 719 KAEETLKALKGSVKD 733
>pdb|3NWH|A Chain A, Crystal Structure Of Bst2TETHERIN
pdb|3NWH|B Chain B, Crystal Structure Of Bst2TETHERIN
pdb|3NWH|C Chain C, Crystal Structure Of Bst2TETHERIN
pdb|3NWH|D Chain D, Crystal Structure Of Bst2TETHERIN
Length = 112
Score = 27.3 bits (59), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 16/50 (32%), Positives = 32/50 (64%), Gaps = 4/50 (8%)
Query: 53 SALRSQLAEKDSRIAELQSQIESIYSSLSDKLGQAQADKERLSKENEALT 102
++L ++ A+ ++ EL+ +I ++L+ KL A A+ ERL +EN+ L+
Sbjct: 60 ASLDAEKAQGQKKVEELEGEI----TTLNHKLQDASAEVERLRRENQVLS 105
>pdb|3MQB|A Chain A, Crystal Structure Of Ectodomain Of Bst-2TETHERINCD317 (C2)
pdb|3MQB|B Chain B, Crystal Structure Of Ectodomain Of Bst-2TETHERINCD317 (C2)
pdb|3MQB|E Chain E, Crystal Structure Of Ectodomain Of Bst-2TETHERINCD317 (C2)
pdb|3MQB|F Chain F, Crystal Structure Of Ectodomain Of Bst-2TETHERINCD317 (C2)
Length = 121
Score = 27.3 bits (59), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 16/50 (32%), Positives = 32/50 (64%), Gaps = 4/50 (8%)
Query: 53 SALRSQLAEKDSRIAELQSQIESIYSSLSDKLGQAQADKERLSKENEALT 102
++L ++ A+ ++ EL+ +I ++L+ KL A A+ ERL +EN+ L+
Sbjct: 60 ASLDAEKAQGQKKVEELEGEI----TTLNHKLQDASAEVERLRRENQVLS 105
>pdb|2XG7|A Chain A, Crystal Structure Of Bst2-Tetherin Ectodomain Expressed In
Hek293t Cells
pdb|2XG7|C Chain C, Crystal Structure Of Bst2-Tetherin Ectodomain Expressed In
Hek293t Cells
Length = 103
Score = 27.3 bits (59), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 16/50 (32%), Positives = 32/50 (64%), Gaps = 4/50 (8%)
Query: 53 SALRSQLAEKDSRIAELQSQIESIYSSLSDKLGQAQADKERLSKENEALT 102
++L ++ A+ ++ EL+ +I ++L+ KL A A+ ERL +EN+ L+
Sbjct: 50 ASLDAEKAQGQKKVEELEGEI----TTLNHKLQDASAEVERLRRENQVLS 95
>pdb|3MQC|A Chain A, Crystal Structure Of Ectodomain Of Bst-2TETHERINCD317
(P21)
pdb|3MQC|B Chain B, Crystal Structure Of Ectodomain Of Bst-2TETHERINCD317
(P21)
pdb|3MQC|C Chain C, Crystal Structure Of Ectodomain Of Bst-2TETHERINCD317
(P21)
pdb|3MQC|D Chain D, Crystal Structure Of Ectodomain Of Bst-2TETHERINCD317
(P21)
Length = 121
Score = 26.9 bits (58), Expect = 6.7, Method: Compositional matrix adjust.
Identities = 16/50 (32%), Positives = 32/50 (64%), Gaps = 4/50 (8%)
Query: 53 SALRSQLAEKDSRIAELQSQIESIYSSLSDKLGQAQADKERLSKENEALT 102
++L ++ A+ ++ EL+ +I ++L+ KL A A+ ERL +EN+ L+
Sbjct: 60 ASLDAEKAQGQKKVEELEGEI----TTLNHKLQDASAEVERLRRENQVLS 105
>pdb|2X7A|A Chain A, Structural Basis Of Hiv-1 Tethering To Membranes By The
Bst2-Tetherin Ectodomain
pdb|2X7A|B Chain B, Structural Basis Of Hiv-1 Tethering To Membranes By The
Bst2-Tetherin Ectodomain
pdb|2X7A|C Chain C, Structural Basis Of Hiv-1 Tethering To Membranes By The
Bst2-Tetherin Ectodomain
pdb|2X7A|D Chain D, Structural Basis Of Hiv-1 Tethering To Membranes By The
Bst2-Tetherin Ectodomain
pdb|2X7A|E Chain E, Structural Basis Of Hiv-1 Tethering To Membranes By The
Bst2-Tetherin Ectodomain
pdb|2X7A|F Chain F, Structural Basis Of Hiv-1 Tethering To Membranes By The
Bst2-Tetherin Ectodomain
pdb|2X7A|G Chain G, Structural Basis Of Hiv-1 Tethering To Membranes By The
Bst2-Tetherin Ectodomain
pdb|2X7A|H Chain H, Structural Basis Of Hiv-1 Tethering To Membranes By The
Bst2-Tetherin Ectodomain
pdb|2X7A|I Chain I, Structural Basis Of Hiv-1 Tethering To Membranes By The
Bst2-Tetherin Ectodomain
pdb|2X7A|J Chain J, Structural Basis Of Hiv-1 Tethering To Membranes By The
Bst2-Tetherin Ectodomain
pdb|2X7A|K Chain K, Structural Basis Of Hiv-1 Tethering To Membranes By The
Bst2-Tetherin Ectodomain
Length = 61
Score = 26.9 bits (58), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 16/50 (32%), Positives = 32/50 (64%), Gaps = 4/50 (8%)
Query: 53 SALRSQLAEKDSRIAELQSQIESIYSSLSDKLGQAQADKERLSKENEALT 102
++L ++ A+ ++ EL+ +I ++L+ KL A A+ ERL +EN+ L+
Sbjct: 14 ASLDAEKAQGQKKVEELEGEI----TTLNHKLQDASAEVERLRRENQVLS 59
>pdb|4DVZ|A Chain A, Crystal Structure Of The Helicobacter Pylori Caga
Oncoprotein
Length = 569
Score = 26.9 bits (58), Expect = 8.2, Method: Compositional matrix adjust.
Identities = 25/75 (33%), Positives = 35/75 (46%), Gaps = 3/75 (4%)
Query: 54 ALRSQLAEKDSRIAELQSQIESIYSSLSDKLGQAQADKERLSKENEALTNTVRKLQRDVS 113
AL ++ A +D+R ++ I LSDKL + D + SK + N K D S
Sbjct: 402 ALINKEANRDARAIAYTQNLKGIKRELSDKLEKISKDLKDFSKSFDEFKNGKNK---DFS 458
Query: 114 KLEVFRKTLVQSLKD 128
K E K L S+KD
Sbjct: 459 KAEETLKALKGSVKD 473
>pdb|3MQ7|A Chain A, Crystal Structure Of Ectodomain Mutant Of
Bst-2TETHERINCD317
pdb|3MQ7|B Chain B, Crystal Structure Of Ectodomain Mutant Of
Bst-2TETHERINCD317
pdb|3MQ7|C Chain C, Crystal Structure Of Ectodomain Mutant Of
Bst-2TETHERINCD317
pdb|3MQ7|D Chain D, Crystal Structure Of Ectodomain Mutant Of
Bst-2TETHERINCD317
pdb|3MQ7|E Chain E, Crystal Structure Of Ectodomain Mutant Of
Bst-2TETHERINCD317
pdb|3MQ7|F Chain F, Crystal Structure Of Ectodomain Mutant Of
Bst-2TETHERINCD317
pdb|3MQ7|G Chain G, Crystal Structure Of Ectodomain Mutant Of
Bst-2TETHERINCD317
pdb|3MQ7|H Chain H, Crystal Structure Of Ectodomain Mutant Of
Bst-2TETHERINCD317
pdb|3MQ7|I Chain I, Crystal Structure Of Ectodomain Mutant Of
Bst-2TETHERINCD317
pdb|3MQ7|J Chain J, Crystal Structure Of Ectodomain Mutant Of
Bst-2TETHERINCD317
pdb|3MQ7|K Chain K, Crystal Structure Of Ectodomain Mutant Of
Bst-2TETHERINCD317
pdb|3MQ7|L Chain L, Crystal Structure Of Ectodomain Mutant Of
Bst-2TETHERINCD317
Length = 121
Score = 26.6 bits (57), Expect = 8.9, Method: Compositional matrix adjust.
Identities = 16/50 (32%), Positives = 32/50 (64%), Gaps = 4/50 (8%)
Query: 53 SALRSQLAEKDSRIAELQSQIESIYSSLSDKLGQAQADKERLSKENEALT 102
++L ++ A+ ++ EL+ +I ++L+ KL A A+ ERL +EN+ L+
Sbjct: 60 ASLDAEKAQGQKKVEELEGEI----TTLNHKLQDASAEVERLRRENQVLS 105
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
0.308 0.123 0.322
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,055,259
Number of Sequences: 62578
Number of extensions: 172752
Number of successful extensions: 534
Number of sequences better than 100.0: 74
Number of HSP's better than 100.0 without gapping: 37
Number of HSP's successfully gapped in prelim test: 37
Number of HSP's that attempted gapping in prelim test: 458
Number of HSP's gapped (non-prelim): 112
length of query: 203
length of database: 14,973,337
effective HSP length: 94
effective length of query: 109
effective length of database: 9,091,005
effective search space: 990919545
effective search space used: 990919545
T: 11
A: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.7 bits)
S2: 49 (23.5 bits)