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= psy2633
(764 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2GCJ|A Chain A, Crystal Structure Of The Pob3 Middle Domain
pdb|2GCJ|B Chain B, Crystal Structure Of The Pob3 Middle Domain
pdb|2GCJ|C Chain C, Crystal Structure Of The Pob3 Middle Domain
pdb|2GCJ|D Chain D, Crystal Structure Of The Pob3 Middle Domain
Length = 261
Score = 203 bits (516), Expect = 3e-52, Method: Compositional matrix adjust.
Identities = 97/253 (38%), Positives = 161/253 (63%), Gaps = 4/253 (1%)
Query: 180 EAFKDSVMNQASVINATGDAIAVFNEIQCLTPRGRYDIKIFNSFFQLHGKTFDYKIPIST 239
EAF + + +A + GDAI F ++ TPRGRYDI I+ + +L GKT++YK+
Sbjct: 5 EAFYEELKEKADIGEVAGDAIVSFQDVFFTTPRGRYDIDIYKNSIRLRGKTYEYKLQHRQ 64
Query: 240 VLRMFTLPHKDGRQNFFVISLDPPIKQGQTRYHFLTLLFNQDETSEMELPFSEQELKEKY 299
+ R+ +LP D + V++++PP+++GQT Y FL L F +DE +E++L +++ +E Y
Sbjct: 65 IQRIVSLPKADDIHHLLVLAIEPPLRKGQTTYPFLVLQFQKDEETEVQLNLEDEDYEENY 124
Query: 300 EGKLDKELSGPTYEVMAKIMKVIVNRKITVPGSFRGHTGTSAVTCSYKAAAGYIYPLERG 359
+ KL K+ T+ V++ ++K + +R++ VPG ++ AV+CS+KA GY+YPL+
Sbjct: 125 KDKLKKQYDAKTHIVLSHVLKGLTDRRVIVPGEYKSKYDQCAVSCSFKANEGYLYPLDNA 184
Query: 360 FIFIHKPPIHIRFEEIATVNFARSG---GSTRSFDFEIELKSGV-LHTFSSIEKEEYGKL 415
F F+ KP ++I F +++ VN +R+G S+R+FD E+ L+S TF++I KEE L
Sbjct: 185 FFFLTKPTLYIPFSDVSMVNISRAGQTSTSSRTFDLEVVLRSNRGSTTFANISKEEQQLL 244
Query: 416 FDFIREKKLRVKN 428
F++ K LRVKN
Sbjct: 245 EQFLKSKNLRVKN 257
>pdb|2GCL|A Chain A, Structure Of The Pob3 Middle Domain
pdb|2GCL|B Chain B, Structure Of The Pob3 Middle Domain
Length = 261
Score = 201 bits (512), Expect = 9e-52, Method: Compositional matrix adjust.
Identities = 98/253 (38%), Positives = 160/253 (63%), Gaps = 4/253 (1%)
Query: 180 EAFKDSVMNQASVINATGDAIAVFNEIQCLTPRGRYDIKIFNSFFQLHGKTFDYKIPIST 239
EAF + + +A + GDAI F ++ TPRGRYDI I+ + +L GKT++YK+
Sbjct: 5 EAFYEELKEKADIGEVAGDAIVSFQDVFFTTPRGRYDIDIYKNSIRLRGKTYEYKLQHRQ 64
Query: 240 VLRMFTLPHKDGRQNFFVISLDPPIKQGQTRYHFLTLLFNQDETSEMELPFSEQELKEKY 299
+ R+ +LP D + V +++PP++QGQT Y FL L F +DE +E++L +++ +E Y
Sbjct: 65 IQRIVSLPKADDIHHXXVXAIEPPLRQGQTTYPFLVLQFQKDEETEVQLNLEDEDYEENY 124
Query: 300 EGKLDKELSGPTYEVMAKIMKVIVNRKITVPGSFRGHTGTSAVTCSYKAAAGYIYPLERG 359
+ KL K+ T+ V++ ++K + +R++ VPG ++ AV+CS+KA GY+YPL+
Sbjct: 125 KDKLKKQYDAKTHIVLSHVLKGLTDRRVIVPGEYKSKYDQCAVSCSFKANEGYLYPLDNA 184
Query: 360 FIFIHKPPIHIRFEEIATVNFARSG---GSTRSFDFEIELKSGV-LHTFSSIEKEEYGKL 415
F F+ KP ++I F +++ VN +R+G S+R+FD E+ L+S TF++I KEE L
Sbjct: 185 FFFLTKPTLYIPFSDVSXVNISRAGQTSTSSRTFDLEVVLRSNRGSTTFANISKEEQQLL 244
Query: 416 FDFIREKKLRVKN 428
F++ K LRVKN
Sbjct: 245 EQFLKSKNLRVKN 257
>pdb|1QRV|A Chain A, Crystal Structure Of The Complex Of Hmg-D And Dna
pdb|1QRV|B Chain B, Crystal Structure Of The Complex Of Hmg-D And Dna
Length = 73
Score = 81.3 bits (199), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 35/65 (53%), Positives = 51/65 (78%), Gaps = 2/65 (3%)
Query: 557 PMSAYMMWFNDMREKIKKDNPGISFTEIAKKGGELWKTVSSKEKAEYDEKVNKAKEDYNE 616
P+SAYM+W N RE IK++NPGI TE+AK+GGELW+ + K+K+E++ K KAK+DY+
Sbjct: 7 PLSAYMLWLNSARESIKRENPGIKVTEVAKRGGELWRAM--KDKSEWEAKAAKAKDDYDR 64
Query: 617 ALKAY 621
A+K +
Sbjct: 65 AVKEF 69
>pdb|1E7J|A Chain A, Hmg-D Complexed To A Bulge Dna
Length = 74
Score = 81.3 bits (199), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 35/65 (53%), Positives = 51/65 (78%), Gaps = 2/65 (3%)
Query: 557 PMSAYMMWFNDMREKIKKDNPGISFTEIAKKGGELWKTVSSKEKAEYDEKVNKAKEDYNE 616
P+SAYM+W N RE IK++NPGI TE+AK+GGELW+ + K+K+E++ K KAK+DY+
Sbjct: 8 PLSAYMLWLNSARESIKRENPGIKVTEVAKRGGELWRAM--KDKSEWEAKAAKAKDDYDR 65
Query: 617 ALKAY 621
A+K +
Sbjct: 66 AVKEF 70
>pdb|1HMA|A Chain A, The Solution Structure And Dynamics Of The Dna Binding
Domain Of Hmg-D From Drosophila Melanogaster
Length = 73
Score = 80.9 bits (198), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 35/65 (53%), Positives = 51/65 (78%), Gaps = 2/65 (3%)
Query: 557 PMSAYMMWFNDMREKIKKDNPGISFTEIAKKGGELWKTVSSKEKAEYDEKVNKAKEDYNE 616
P+SAYM+W N RE IK++NPGI TE+AK+GGELW+ + K+K+E++ K KAK+DY+
Sbjct: 7 PLSAYMLWLNSARESIKRENPGIKVTEVAKRGGELWRAM--KDKSEWEAKAAKAKDDYDR 64
Query: 617 ALKAY 621
A+K +
Sbjct: 65 AVKEF 69
>pdb|3NM9|A Chain A, Hmgd(M13a)-Dna Complex
pdb|3NM9|D Chain D, Hmgd(M13a)-Dna Complex
pdb|3NM9|G Chain G, Hmgd(M13a)-Dna Complex
pdb|3NM9|J Chain J, Hmgd(M13a)-Dna Complex
pdb|3NM9|M Chain M, Hmgd(M13a)-Dna Complex
pdb|3NM9|P Chain P, Hmgd(M13a)-Dna Complex
Length = 73
Score = 79.0 bits (193), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 34/65 (52%), Positives = 50/65 (76%), Gaps = 2/65 (3%)
Query: 557 PMSAYMMWFNDMREKIKKDNPGISFTEIAKKGGELWKTVSSKEKAEYDEKVNKAKEDYNE 616
P+SAY +W N RE IK++NPGI TE+AK+GGELW+ + K+K+E++ K KAK+DY+
Sbjct: 7 PLSAYALWLNSARESIKRENPGIKVTEVAKRGGELWRAM--KDKSEWEAKAAKAKDDYDR 64
Query: 617 ALKAY 621
A+K +
Sbjct: 65 AVKEF 69
>pdb|3F5R|A Chain A, The Crystal Structure Of A Subunit Of The Heterodimeric
Fact Complex (Spt16p-Pob3p)
Length = 191
Score = 72.8 bits (177), Expect = 6e-13, Method: Compositional matrix adjust.
Identities = 52/167 (31%), Positives = 78/167 (46%), Gaps = 14/167 (8%)
Query: 3 EALEFQEVSSEF-----RGALCPGKLKITDQNIVFKNKKTG--KVEQINGP------DLD 49
E L FQ S++F + G+ +I D + +K +G Q P +L
Sbjct: 15 ENLYFQGXSTDFDRIYLNQSKFSGRFRIADSGLGWKISTSGGSAANQARKPFLLPATELS 74
Query: 50 FVNWQKLVGTWALRIFLKNGSLHRFAGFKETEIDKICSFFKTNFKIDVPEKELSVRGWNW 109
V W + + L+I KN + + GF + + + I + F F I V ++E S+RGWNW
Sbjct: 75 TVQWSRGCRGYDLKINTKNQGVIQLDGFSQDDYNLIKNDFHRRFNIQVEQREHSLRGWNW 134
Query: 110 GGTKFIGNVLSFDVNNTTAFEIPLRDVSQCT-TGKNEVTVEFHPNDE 155
G T N F +N FEIP ++ T KNEV +EF+ DE
Sbjct: 135 GKTDLARNEXVFALNGKPTFEIPYARINNTNLTSKNEVGIEFNIQDE 181
>pdb|1WXL|A Chain A, Solution Structure Of The Hmg-Box Domain In The Ssrp1
Subunit Of Fact
Length = 73
Score = 70.1 bits (170), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 31/64 (48%), Positives = 49/64 (76%), Gaps = 2/64 (3%)
Query: 559 SAYMMWFNDMREKIKKDNPGISFTEIAKKGGELWKTVSSKEKAEYDEKVNKAKEDYNEAL 618
+A+M+W ND RE IK++NPGI TEIAKKGGE+WK + K+K+++++ K K+ Y++ +
Sbjct: 9 TAFMLWLNDTRESIKRENPGIKVTEIAKKGGEMWKEL--KDKSKWEDAAAKDKQRYHDEM 66
Query: 619 KAYK 622
+ YK
Sbjct: 67 RNYK 70
>pdb|1J3D|A Chain A, Solution Structure Of The C-Terminal Domain Of The Hmgb2
Length = 78
Score = 57.0 bits (136), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 27/66 (40%), Positives = 44/66 (66%)
Query: 557 PMSAYMMWFNDMREKIKKDNPGISFTEIAKKGGELWKTVSSKEKAEYDEKVNKAKEDYNE 616
P SA+ ++ ++ R KIK ++PG+S + AKK GE+W S+K+K Y++K K KE Y +
Sbjct: 11 PPSAFFLFCSEHRPKIKSEHPGLSIGDTAKKLGEMWSEQSAKDKQPYEQKAAKLKEKYEK 70
Query: 617 ALKAYK 622
+ AY+
Sbjct: 71 DIAAYR 76
>pdb|1J3C|A Chain A, Solution Structure Of The C-Terminal Domain Of The Hmgb2
Length = 79
Score = 57.0 bits (136), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 27/66 (40%), Positives = 44/66 (66%)
Query: 557 PMSAYMMWFNDMREKIKKDNPGISFTEIAKKGGELWKTVSSKEKAEYDEKVNKAKEDYNE 616
P SA+ ++ ++ R KIK ++PG+S + AKK GE+W S+K+K Y++K K KE Y +
Sbjct: 12 PPSAFFLFCSEYRPKIKSEHPGLSIGDTAKKLGEMWSEQSAKDKQPYEQKAAKLKEKYEK 71
Query: 617 ALKAYK 622
+ AY+
Sbjct: 72 DIAAYR 77
>pdb|2YQI|A Chain A, Solution Structure Of The Second Hmg-Box Domain From High
Mobility Group Protein B3
Length = 81
Score = 54.3 bits (129), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 27/66 (40%), Positives = 39/66 (59%)
Query: 557 PMSAYMMWFNDMREKIKKDNPGISFTEIAKKGGELWKTVSSKEKAEYDEKVNKAKEDYNE 616
P S + ++ ++ R KIK NPGIS ++AKK GE+W ++ EK Y K K KE Y +
Sbjct: 13 PPSGFFLFCSEFRPKIKSTNPGISIGDVAKKLGEMWNNLNDSEKQPYITKAAKLKEKYEK 72
Query: 617 ALKAYK 622
+ YK
Sbjct: 73 DVADYK 78
>pdb|1CG7|A Chain A, Hmg Protein Nhp6a From Saccharomyces Cerevisiae
Length = 93
Score = 50.1 bits (118), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 22/57 (38%), Positives = 37/57 (64%)
Query: 558 MSAYMMWFNDMREKIKKDNPGISFTEIAKKGGELWKTVSSKEKAEYDEKVNKAKEDY 614
+SAYM + N+ R+ ++ +NP I+F ++ KK GE WK ++ +EK Y+ K K+ Y
Sbjct: 25 LSAYMFFANENRDIVRSENPDITFGQVGKKLGEKWKALTPEEKQPYEAKAQADKKRY 81
>pdb|2EQZ|A Chain A, Solution Structure Of The First Hmg-Box Domain From High
Mobility Group Protein B3
Length = 86
Score = 50.1 bits (118), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 28/66 (42%), Positives = 39/66 (59%), Gaps = 2/66 (3%)
Query: 558 MSAYMMWFNDMREKIKKDNPGI--SFTEIAKKGGELWKTVSSKEKAEYDEKVNKAKEDYN 615
MSAY + RE+ KK NP + +F E +KK E WKT+S KEK+++DE K Y+
Sbjct: 20 MSAYAFFVQTCREEHKKKNPEVPVNFAEFSKKCSERWKTMSGKEKSKFDEMAKADKVRYD 79
Query: 616 EALKAY 621
+K Y
Sbjct: 80 REMKDY 85
>pdb|1J5N|A Chain A, Solution Structure Of The Non-Sequence-Specific Hmgb
Protein Nhp6a In Complex With Sry Dna
pdb|1LWM|A Chain A, Solution Structure Of The Sequence-Non-Specific Hmgb
Protein Nhp6a
Length = 93
Score = 50.1 bits (118), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 22/57 (38%), Positives = 37/57 (64%)
Query: 558 MSAYMMWFNDMREKIKKDNPGISFTEIAKKGGELWKTVSSKEKAEYDEKVNKAKEDY 614
+SAYM + N+ R+ ++ +NP I+F ++ KK GE WK ++ +EK Y+ K K+ Y
Sbjct: 25 LSAYMFFANENRDIVRSENPDITFGQVGKKLGEKWKALTPEEKQPYEAKAQADKKRY 81
>pdb|1NHM|A Chain A, The Structure Of The Hmg Box And Its Interaction With Dna
pdb|1NHN|A Chain A, The Structure Of The Hmg Box And Its Interaction With Dna
Length = 81
Score = 47.4 bits (111), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 25/66 (37%), Positives = 44/66 (66%)
Query: 557 PMSAYMMWFNDMREKIKKDNPGISFTEIAKKGGELWKTVSSKEKAEYDEKVNKAKEDYNE 616
P SA+ ++ ++ R KIK ++PG+S ++AKK GE+W ++ +K Y++K K KE Y +
Sbjct: 8 PPSAFFLFCSEYRPKIKGEHPGLSIGDVAKKLGEMWNNTAADDKQPYEKKAAKLKEKYEK 67
Query: 617 ALKAYK 622
+ AY+
Sbjct: 68 DIAAYR 73
>pdb|1HME|A Chain A, Structure Of The Hmg Box Motif In The B-Domain Of Hmg1
pdb|1HMF|A Chain A, Structure Of The Hmg Box Motif In The B-Domain Of Hmg1
Length = 77
Score = 47.4 bits (111), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 25/66 (37%), Positives = 44/66 (66%)
Query: 557 PMSAYMMWFNDMREKIKKDNPGISFTEIAKKGGELWKTVSSKEKAEYDEKVNKAKEDYNE 616
P SA+ ++ ++ R KIK ++PG+S ++AKK GE+W ++ +K Y++K K KE Y +
Sbjct: 10 PPSAFFLFCSEYRPKIKGEHPGLSIGDVAKKLGEMWNNTAADDKQPYEKKAAKLKEKYEK 69
Query: 617 ALKAYK 622
+ AY+
Sbjct: 70 DIAAYR 75
>pdb|1HSM|A Chain A, The Structure Of The Hmg Box And Its Interaction With Dna
pdb|1HSN|A Chain A, The Structure Of The Hmg Box And Its Interaction With Dna
Length = 79
Score = 47.4 bits (111), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 25/66 (37%), Positives = 44/66 (66%)
Query: 557 PMSAYMMWFNDMREKIKKDNPGISFTEIAKKGGELWKTVSSKEKAEYDEKVNKAKEDYNE 616
P SA+ ++ ++ R KIK ++PG+S ++AKK GE+W ++ +K Y++K K KE Y +
Sbjct: 6 PPSAFFLFCSEYRPKIKGEHPGLSIGDVAKKLGEMWNNTAADDKQPYEKKAAKLKEKYEK 65
Query: 617 ALKAYK 622
+ AY+
Sbjct: 66 DIAAYR 71
>pdb|1CKT|A Chain A, Crystal Structure Of Hmg1 Domain A Bound To A
Cisplatin-modified Dna Duplex
Length = 71
Score = 46.2 bits (108), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 24/66 (36%), Positives = 39/66 (59%), Gaps = 2/66 (3%)
Query: 558 MSAYMMWFNDMREKIKKDNP--GISFTEIAKKGGELWKTVSSKEKAEYDEKVNKAKEDYN 615
MS+Y + RE+ KK +P ++F+E +KK E WKT+S+KEK ++++ K Y
Sbjct: 6 MSSYAFFVQTCREEHKKKHPDASVNFSEFSKKCSERWKTMSAKEKGKFEDMAKADKARYE 65
Query: 616 EALKAY 621
+K Y
Sbjct: 66 REMKTY 71
>pdb|2LY4|A Chain A, Hmgb1-Facilitated P53 Dna Binding Occurs Via Hmg-BoxP53
Transactivation Domain Interaction And Is Regulated By
The Acidic Tail
Length = 83
Score = 46.2 bits (108), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 24/66 (36%), Positives = 39/66 (59%), Gaps = 2/66 (3%)
Query: 558 MSAYMMWFNDMREKIKKDNP--GISFTEIAKKGGELWKTVSSKEKAEYDEKVNKAKEDYN 615
MS+Y + RE+ KK +P ++F+E +KK E WKT+S+KEK ++++ K Y
Sbjct: 12 MSSYAFFVQTCREEHKKKHPDASVNFSEFSKKCSERWKTMSAKEKGKFEDMAKADKARYE 71
Query: 616 EALKAY 621
+K Y
Sbjct: 72 REMKTY 77
>pdb|2YRQ|A Chain A, Solution Structure Of The Tandem Hmg Box Domain From Human
High Mobility Group Protein B1
Length = 173
Score = 45.8 bits (107), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 24/66 (36%), Positives = 39/66 (59%), Gaps = 2/66 (3%)
Query: 558 MSAYMMWFNDMREKIKKDNP--GISFTEIAKKGGELWKTVSSKEKAEYDEKVNKAKEDYN 615
MS+Y + RE+ KK +P ++F+E +KK E WKT+S+KEK ++++ K Y
Sbjct: 20 MSSYAFFVQTCREEHKKKHPDASVNFSEFSKKCSERWKTMSAKEKGKFEDMAKADKARYE 79
Query: 616 EALKAY 621
+K Y
Sbjct: 80 REMKTY 85
Score = 45.8 bits (107), Expect = 9e-05, Method: Compositional matrix adjust.
Identities = 25/66 (37%), Positives = 44/66 (66%)
Query: 557 PMSAYMMWFNDMREKIKKDNPGISFTEIAKKGGELWKTVSSKEKAEYDEKVNKAKEDYNE 616
P SA+ ++ ++ R KIK ++PG+S ++AKK GE+W ++ +K Y++K K KE Y +
Sbjct: 105 PPSAFFLFCSEYRPKIKGEHPGLSIGDVAKKLGEMWNNTAADDKQPYEKKAAKLKEKYEK 164
Query: 617 ALKAYK 622
+ AY+
Sbjct: 165 DIAAYR 170
>pdb|1AAB|A Chain A, Nmr Structure Of Rat Hmg1 Hmga Fragment
Length = 83
Score = 45.4 bits (106), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 24/66 (36%), Positives = 39/66 (59%), Gaps = 2/66 (3%)
Query: 558 MSAYMMWFNDMREKIKKDNP--GISFTEIAKKGGELWKTVSSKEKAEYDEKVNKAKEDYN 615
MS+Y + RE+ KK +P ++F+E +KK E WKT+S+KEK ++++ K Y
Sbjct: 12 MSSYAFFVQTSREEHKKKHPDASVNFSEFSKKCSERWKTMSAKEKGKFEDMAKADKARYE 71
Query: 616 EALKAY 621
+K Y
Sbjct: 72 REMKTY 77
>pdb|1HRZ|A Chain A, The 3d Structure Of The Human Sry-Dna Complex Solved By
Multi-Dimensional Heteronuclear-Edited And-Filtered Nmr
pdb|1HRY|A Chain A, The 3d Structure Of The Human Sry-Dna Complex Solved By
Multid-Dimensional Heteronuclear-Edited And-Filtered Nmr
Length = 76
Score = 45.1 bits (105), Expect = 1e-04, Method: Composition-based stats.
Identities = 21/66 (31%), Positives = 38/66 (57%)
Query: 557 PMSAYMMWFNDMREKIKKDNPGISFTEIAKKGGELWKTVSSKEKAEYDEKVNKAKEDYNE 616
PM+A+++W D R K+ +NP + +EI+K+ G WK ++ EK + ++ K + + E
Sbjct: 8 PMNAFIVWSRDQRRKMALENPRMRNSEISKQLGYQWKMLTEAEKWPFFQEAQKLQAMHRE 67
Query: 617 ALKAYK 622
YK
Sbjct: 68 KYPNYK 73
>pdb|1J46|A Chain A, 3d Solution Nmr Structure Of The Wild Type Hmg-Box Domain
Of The Human Male Sex Determining Factor Sry Complexed
To Dna
Length = 85
Score = 45.1 bits (105), Expect = 1e-04, Method: Composition-based stats.
Identities = 21/66 (31%), Positives = 38/66 (57%)
Query: 557 PMSAYMMWFNDMREKIKKDNPGISFTEIAKKGGELWKTVSSKEKAEYDEKVNKAKEDYNE 616
PM+A+++W D R K+ +NP + +EI+K+ G WK ++ EK + ++ K + + E
Sbjct: 8 PMNAFIVWSRDQRRKMALENPRMRNSEISKQLGYQWKMLTEAEKWPFFQEAQKLQAMHRE 67
Query: 617 ALKAYK 622
YK
Sbjct: 68 KYPNYK 73
>pdb|2GZK|A Chain A, Structure Of A Complex Of Tandem Hmg Boxes And Dna
Length = 159
Score = 45.1 bits (105), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 25/66 (37%), Positives = 44/66 (66%)
Query: 557 PMSAYMMWFNDMREKIKKDNPGISFTEIAKKGGELWKTVSSKEKAEYDEKVNKAKEDYNE 616
P SA+ ++ ++ R KIK ++PG+S ++AKK GE+W ++ +K Y++K K KE Y +
Sbjct: 92 PPSAFFLFCSEYRPKIKGEHPGLSIGDVAKKLGEMWNNTAADDKQPYEKKAAKLKEKYEK 151
Query: 617 ALKAYK 622
+ AY+
Sbjct: 152 DIAAYR 157
Score = 43.1 bits (100), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 21/66 (31%), Positives = 38/66 (57%)
Query: 557 PMSAYMMWFNDMREKIKKDNPGISFTEIAKKGGELWKTVSSKEKAEYDEKVNKAKEDYNE 616
PM+A+++W D R K+ +NP + +EI+K+ G WK ++ EK + ++ K + + E
Sbjct: 8 PMNAFIVWSRDQRRKMALENPRMRNSEISKQLGYQWKMLTEAEKWPFFQEAQKLQAMHRE 67
Query: 617 ALKAYK 622
YK
Sbjct: 68 KYPNYK 73
>pdb|4A3N|A Chain A, Crystal Structure Of Hmg-Box Of Human Sox17
Length = 71
Score = 44.3 bits (103), Expect = 2e-04, Method: Composition-based stats.
Identities = 19/66 (28%), Positives = 38/66 (57%)
Query: 557 PMSAYMMWFNDMREKIKKDNPGISFTEIAKKGGELWKTVSSKEKAEYDEKVNKAKEDYNE 616
PM+A+M+W D R+++ + NP + E++K G+ WK ++ EK + E+ + + + +
Sbjct: 6 PMNAFMVWAKDERKRLAQQNPDLHNAELSKMLGKSWKALTLAEKRPFVEEAERLRVQHMQ 65
Query: 617 ALKAYK 622
YK
Sbjct: 66 DHPNYK 71
>pdb|2YUL|A Chain A, Solution Structure Of The Hmg Box Of Human Transcription
Factor Sox-17
Length = 82
Score = 44.3 bits (103), Expect = 2e-04, Method: Composition-based stats.
Identities = 19/66 (28%), Positives = 38/66 (57%)
Query: 557 PMSAYMMWFNDMREKIKKDNPGISFTEIAKKGGELWKTVSSKEKAEYDEKVNKAKEDYNE 616
PM+A+M+W D R+++ + NP + E++K G+ WK ++ EK + E+ + + + +
Sbjct: 11 PMNAFMVWAKDERKRLAQQNPDLHNAELSKMLGKSWKALTLAEKRPFVEEAERLRVQHMQ 70
Query: 617 ALKAYK 622
YK
Sbjct: 71 DHPNYK 76
>pdb|3F27|D Chain D, Structure Of Sox17 Bound To Dna
Length = 83
Score = 44.3 bits (103), Expect = 3e-04, Method: Composition-based stats.
Identities = 19/66 (28%), Positives = 38/66 (57%)
Query: 557 PMSAYMMWFNDMREKIKKDNPGISFTEIAKKGGELWKTVSSKEKAEYDEKVNKAKEDYNE 616
PM+A+M+W D R+++ + NP + E++K G+ WK ++ EK + E+ + + + +
Sbjct: 10 PMNAFMVWAKDERKRLAQQNPDLHNAELSKMLGKSWKALTLAEKRPFVEEAERLRVQHMQ 69
Query: 617 ALKAYK 622
YK
Sbjct: 70 DHPNYK 75
>pdb|1O4X|B Chain B, Ternary Complex Of The Dna Binding Domains Of The Oct1 And
Sox2 Transcription Factors With A 19mer Oligonucleotide
From The Hoxb1 Regulatory Element
Length = 88
Score = 43.5 bits (101), Expect = 5e-04, Method: Composition-based stats.
Identities = 20/66 (30%), Positives = 38/66 (57%)
Query: 557 PMSAYMMWFNDMREKIKKDNPGISFTEIAKKGGELWKTVSSKEKAEYDEKVNKAKEDYNE 616
PM+A+M+W R K+ ++NP + +EI+K+ G WK +S EK + ++ + + + +
Sbjct: 11 PMNAFMVWSRGQRRKMAQENPKMHNSEISKRLGAEWKLLSETEKRPFIDEAKRLRALHMK 70
Query: 617 ALKAYK 622
YK
Sbjct: 71 EHPDYK 76
>pdb|1J47|A Chain A, 3d Solution Nmr Structure Of The M9i Mutant Of The Hmg-Box
Domain Of The Human Male Sex Determining Factor Sry
Complexed To Dna
Length = 85
Score = 43.5 bits (101), Expect = 5e-04, Method: Composition-based stats.
Identities = 20/66 (30%), Positives = 38/66 (57%)
Query: 557 PMSAYMMWFNDMREKIKKDNPGISFTEIAKKGGELWKTVSSKEKAEYDEKVNKAKEDYNE 616
P++A+++W D R K+ +NP + +EI+K+ G WK ++ EK + ++ K + + E
Sbjct: 8 PINAFIVWSRDQRRKMALENPRMRNSEISKQLGYQWKMLTEAEKWPFFQEAQKLQAMHRE 67
Query: 617 ALKAYK 622
YK
Sbjct: 68 KYPNYK 73
>pdb|2CO9|A Chain A, Solution Structure Of The Hmg_box Domain Of Thymus High
Mobility Group Box Protein Tox From Mouse
Length = 102
Score = 43.5 bits (101), Expect = 5e-04, Method: Composition-based stats.
Identities = 23/66 (34%), Positives = 39/66 (59%)
Query: 557 PMSAYMMWFNDMREKIKKDNPGISFTEIAKKGGELWKTVSSKEKAEYDEKVNKAKEDYNE 616
P+SAY ++F D + IK NP +F E++K +W + ++K Y +K AK++Y +
Sbjct: 21 PVSAYALFFRDTQAAIKGQNPNATFGEVSKIVASMWDGLGEEQKQVYKKKTEAAKKEYLK 80
Query: 617 ALKAYK 622
L AY+
Sbjct: 81 QLAAYR 86
>pdb|1J3X|A Chain A, Solution Structure Of The N-Terminal Domain Of The Hmgb2
Length = 77
Score = 43.5 bits (101), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 23/64 (35%), Positives = 39/64 (60%), Gaps = 2/64 (3%)
Query: 558 MSAYMMWFNDMREKIKKDNP--GISFTEIAKKGGELWKTVSSKEKAEYDEKVNKAKEDYN 615
MS+Y + RE+ KK +P ++F E +KK E WKT+S+KEK+++++ K Y+
Sbjct: 13 MSSYAFFVQTSREEHKKKHPDSSVNFAEFSKKCSERWKTMSAKEKSKFEDMAKSDKARYD 72
Query: 616 EALK 619
+K
Sbjct: 73 REMK 76
>pdb|2LE4|A Chain A, Solution Structure Of The Hmg Box Dna-Binding Domain Of
Human Stem Cell Transcription Factor Sox2
Length = 81
Score = 42.7 bits (99), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 18/44 (40%), Positives = 29/44 (65%)
Query: 557 PMSAYMMWFNDMREKIKKDNPGISFTEIAKKGGELWKTVSSKEK 600
PM+A+M+W R K+ ++NP + +EI+K+ G WK +S EK
Sbjct: 7 PMNAFMVWSRGQRRKMAQENPKMHNSEISKRLGAEWKLLSETEK 50
>pdb|1GT0|D Chain D, Crystal Structure Of A PouHMGDNA TERNARY COMPLEX
Length = 80
Score = 42.7 bits (99), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 18/44 (40%), Positives = 29/44 (65%)
Query: 557 PMSAYMMWFNDMREKIKKDNPGISFTEIAKKGGELWKTVSSKEK 600
PM+A+M+W R K+ ++NP + +EI+K+ G WK +S EK
Sbjct: 6 PMNAFMVWSRGQRRKMAQENPKMHNSEISKRLGAEWKLLSETEK 49
>pdb|4EUW|A Chain A, Crystal Structure Of A Hmg Domain Of Transcription Factor
Sox-9 Bound To Dna (Sox-9DNA) FROM HOMO SAPIENS AT 2.77
A RESOLUTION
Length = 106
Score = 40.0 bits (92), Expect = 0.004, Method: Composition-based stats.
Identities = 18/66 (27%), Positives = 35/66 (53%)
Query: 557 PMSAYMMWFNDMREKIKKDNPGISFTEIAKKGGELWKTVSSKEKAEYDEKVNKAKEDYNE 616
PM+A+M+W R K+ P + E++K G+LW+ ++ EK + E+ + + + +
Sbjct: 33 PMNAFMVWAQAARRKLADQYPHLHNAELSKTLGKLWRLLNESEKRPFVEEAERLRVQHKK 92
Query: 617 ALKAYK 622
YK
Sbjct: 93 DHPDYK 98
>pdb|1I11|A Chain A, Solution Structure Of The Dna Binding Domain, Sox-5 Hmg
Box From Mouse
Length = 81
Score = 40.0 bits (92), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 22/66 (33%), Positives = 36/66 (54%)
Query: 557 PMSAYMMWFNDMREKIKKDNPGISFTEIAKKGGELWKTVSSKEKAEYDEKVNKAKEDYNE 616
PM+A+M+W D R KI + P + + I+K G WK +++ EK Y E+ + + + E
Sbjct: 8 PMNAFMVWAKDERRKILQAFPDMHNSNISKILGSRWKAMTNLEKQPYYEEQARLSKQHLE 67
Query: 617 ALKAYK 622
YK
Sbjct: 68 KYPDYK 73
>pdb|3U2B|C Chain C, Structure Of The Sox4 Hmg Domain Bound To Dna
Length = 79
Score = 38.5 bits (88), Expect = 0.015, Method: Composition-based stats.
Identities = 18/66 (27%), Positives = 35/66 (53%)
Query: 557 PMSAYMMWFNDMREKIKKDNPGISFTEIAKKGGELWKTVSSKEKAEYDEKVNKAKEDYNE 616
PM+A+M+W R KI + +P + EI+K+ G+ WK + +K + ++ + + +
Sbjct: 6 PMNAFMVWSQIERRKIMEQSPDMHNAEISKRLGKRWKLLKDSDKIPFIQEAERLRLKHMA 65
Query: 617 ALKAYK 622
YK
Sbjct: 66 DYPDYK 71
>pdb|2CS1|A Chain A, Solution Structure Of The Hmg Domain Of Human Dna Mismatch
Repair Protein
Length = 92
Score = 35.8 bits (81), Expect = 0.093, Method: Compositional matrix adjust.
Identities = 25/63 (39%), Positives = 36/63 (57%)
Query: 557 PMSAYMMWFNDMREKIKKDNPGISFTEIAKKGGELWKTVSSKEKAEYDEKVNKAKEDYNE 616
PMSA ++ D R + +NP S + + ELWKT+S +EK +Y+EK K E YN
Sbjct: 11 PMSASALFVQDHRPQFLIENPKTSLEDATLQIEELWKTLSEEEKLKYEEKATKDLERYNS 70
Query: 617 ALK 619
+K
Sbjct: 71 QMK 73
>pdb|3TVV|A Chain A, Structure Of The Tandem Ph Domains Of Rtt106 (Residues
68-315)
pdb|3TVV|B Chain B, Structure Of The Tandem Ph Domains Of Rtt106 (Residues
68-315)
Length = 251
Score = 33.9 bits (76), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 23/87 (26%), Positives = 42/87 (48%), Gaps = 1/87 (1%)
Query: 342 VTCSYKAAAGYIYPLERGFIFIHKPPIHIRFEEIATVNFARSGGSTRSFDFEIELKSGVL 401
+ C G +Y L IF K PI + F+ + S + +F+ + K G
Sbjct: 158 LQCHRGTKEGTLYFLPDHIIFGFKKPI-LLFDASDIESITYSSITRLTFNASLVTKDGEK 216
Query: 402 HTFSSIEKEEYGKLFDFIREKKLRVKN 428
+ FS I++ EY K+ D+++ K+ + K+
Sbjct: 217 YEFSXIDQTEYAKIDDYVKRKQXKDKS 243
>pdb|3GYP|A Chain A, Rtt106p
Length = 261
Score = 33.1 bits (74), Expect = 0.53, Method: Compositional matrix adjust.
Identities = 22/87 (25%), Positives = 42/87 (48%), Gaps = 1/87 (1%)
Query: 342 VTCSYKAAAGYIYPLERGFIFIHKPPIHIRFEEIATVNFARSGGSTRSFDFEIELKSGVL 401
+ C G +Y L IF K PI + F+ + S + +F+ + K G
Sbjct: 163 LQCHRGTKEGTLYFLPDHIIFGFKKPI-LLFDASDIESITYSSITRLTFNASLVTKDGEK 221
Query: 402 HTFSSIEKEEYGKLFDFIREKKLRVKN 428
+ FS ++ EY K+ D+++ K+++ K+
Sbjct: 222 YEFSMTDQTEYAKIDDYVKRKQMKDKS 248
>pdb|1WGF|A Chain A, Solution Structure Of The 4th Hmg-Box Of Mouse Ubf1
Length = 90
Score = 32.7 bits (73), Expect = 0.86, Method: Compositional matrix adjust.
Identities = 21/67 (31%), Positives = 39/67 (58%), Gaps = 8/67 (11%)
Query: 557 PMSAYMMWFNDMREKIKKDNPGISFTEIAKKGGELWKTVSSKEKAEYDEKVNKAKEDYNE 616
P+SA ++ + R +++++ P +S +E+ + +W +S K+KA+Y KA+E
Sbjct: 24 PVSAMFIFSEEKRRQLQEERPELSESELTRLLARMWNDLSEKKKAKY-----KAREA--- 75
Query: 617 ALKAYKE 623
ALKA E
Sbjct: 76 ALKAQSE 82
>pdb|2LEF|A Chain A, Lef1 Hmg Domain (From Mouse), Complexed With Dna (15bp),
Nmr, 12 Structures
Length = 86
Score = 32.7 bits (73), Expect = 0.88, Method: Composition-based stats.
Identities = 14/56 (25%), Positives = 30/56 (53%)
Query: 557 PMSAYMMWFNDMREKIKKDNPGISFTEIAKKGGELWKTVSSKEKAEYDEKVNKAKE 612
P++A+M++ +MR + ++ I + G W +S +E+A+Y E K ++
Sbjct: 6 PLNAFMLYMKEMRANVVAESTLKESAAINQILGRRWHALSREEQAKYYELARKERQ 61
>pdb|1WZ6|A Chain A, Solution Structure Of The Hmg_box Domain Of Murine Bobby
Sox Homolog
Length = 82
Score = 32.3 bits (72), Expect = 0.89, Method: Composition-based stats.
Identities = 14/66 (21%), Positives = 34/66 (51%)
Query: 557 PMSAYMMWFNDMREKIKKDNPGISFTEIAKKGGELWKTVSSKEKAEYDEKVNKAKEDYNE 616
PM+A++++ R +++++P + K + W + KEK +Y + + K+ + +
Sbjct: 11 PMNAFLLFCKRHRSLVRQEHPRLDNRGATKILADWWAVLDPKEKQKYTDMAKEYKDAFMK 70
Query: 617 ALKAYK 622
A Y+
Sbjct: 71 ANPGYR 76
>pdb|3GYO|A Chain A, Se-Met Rtt106p
Length = 261
Score = 32.0 bits (71), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 22/87 (25%), Positives = 41/87 (47%), Gaps = 1/87 (1%)
Query: 342 VTCSYKAAAGYIYPLERGFIFIHKPPIHIRFEEIATVNFARSGGSTRSFDFEIELKSGVL 401
+ C G +Y L IF K PI + F+ + S + +F+ + K G
Sbjct: 163 LQCHRGTKEGTLYFLPDHIIFGFKKPI-LLFDASDIESITYSSITRLTFNASLVTKDGEK 221
Query: 402 HTFSSIEKEEYGKLFDFIREKKLRVKN 428
+ FS ++ EY K+ D+++ K+ + K+
Sbjct: 222 YEFSXTDQTEYAKIDDYVKRKQXKDKS 248
>pdb|3FSS|A Chain A, Structure Of The Tandem Ph Domains Of Rtt106
pdb|3TW1|A Chain A, Structure Of Rtt106-Ahn
Length = 237
Score = 31.6 bits (70), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 21/82 (25%), Positives = 40/82 (48%), Gaps = 3/82 (3%)
Query: 342 VTCSYKAAAGYIYPLERGFIF-IHKPPIHIRFEEIATVNFARSGGSTRSFDFEIELKSGV 400
+ C G +Y L IF KP + + +I ++ + S + +F+ + K G
Sbjct: 158 LQCHRGTKEGTLYFLPDHIIFGFKKPILLLDASDIESITY--SSITRLTFNASLVTKDGE 215
Query: 401 LHTFSSIEKEEYGKLFDFIREK 422
+ FS I++ EY K+ D+++ K
Sbjct: 216 KYEFSXIDQTEYAKIDDYVKRK 237
>pdb|3TO1|A Chain A, Two Surfaces On Rtt106 Mediate Histone Binding And
Chaperone Activity
pdb|3TO1|B Chain B, Two Surfaces On Rtt106 Mediate Histone Binding And
Chaperone Activity
Length = 235
Score = 30.8 bits (68), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 21/79 (26%), Positives = 37/79 (46%), Gaps = 1/79 (1%)
Query: 342 VTCSYKAAAGYIYPLERGFIFIHKPPIHIRFEEIATVNFARSGGSTRSFDFEIELKSGVL 401
+ C G +Y L IF K PI + F+ + S + +F+ + K G
Sbjct: 157 LQCHRGTKEGTLYFLPDHIIFGFKKPI-LLFDASDIESITYSSITRLTFNASLVTKDGEK 215
Query: 402 HTFSSIEKEEYGKLFDFIR 420
+ FS I++ EY K+ D+++
Sbjct: 216 YEFSMIDQTEYAKIDDYVK 234
>pdb|1MQ9|A Chain A, Crystal Structure Of High Affinity Alphal I Domain With
Ligand Mimetic Crystal Contact
pdb|1MQA|A Chain A, Crystal Structure Of High Affinity Alphal I Domain In The
Absence Of Ligand Or Metal
Length = 180
Score = 29.6 bits (65), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 19/60 (31%), Positives = 32/60 (53%), Gaps = 7/60 (11%)
Query: 406 SIEKEEYGKLFDFIREKKLRVKNT-----GKGEKPNYKEDFGSSD--DEKEPDAYLARVK 458
S++ +E+ K+ DF+++ ++ NT +YK +F SD K+PDA L VK
Sbjct: 15 SLQPDEFQKILDFMKDVMKKLSNTSYQFAAVQFSTSYKTEFDFSDYVKRKDPDALLKHVK 74
>pdb|2ICA|A Chain A, Cd11a (Lfa1) I-Domain Complexed With Bms-587101 Aka
5-[(5s,
9r)-9-(4-Cyanophenyl)-3-(3,5-Dichlorophenyl)-1-Methyl-2,
4- Dioxo-1,3,7-Triazaspiro [4.4]non-7-Yl]methyl]-3-
Thiophenecarboxylicacid
pdb|2O7N|A Chain A, Cd11a (Lfa1) I-Domain Complexed With 7a-[(4-Cyanophenyl)
Methyl]-6-(3,5-Dichlorophenyl)-5-Oxo-2,3,5,
7a-Tetrahydro- 1h-Pyrrolo[1,2-A]pyrrole-7-Carbonitrile
pdb|3M6F|A Chain A, Cd11a I-Domain Complexed With
6-((5s,9r)-9-(4-Cyanophenyl)-3
Dichlorophenyl)-1-Methyl-2,4-Dioxo-1,3,7-
Triazaspiro[4.4]n Nicotinic Acid
Length = 183
Score = 29.3 bits (64), Expect = 8.9, Method: Compositional matrix adjust.
Identities = 19/60 (31%), Positives = 32/60 (53%), Gaps = 7/60 (11%)
Query: 406 SIEKEEYGKLFDFIREKKLRVKNT-----GKGEKPNYKEDFGSSD--DEKEPDAYLARVK 458
S++ +E+ K+ DF+++ ++ NT +YK +F SD K+PDA L VK
Sbjct: 17 SLQPDEFQKILDFMKDVMKKLSNTSYQFAAVQFSTSYKTEFDFSDYVKRKDPDALLKHVK 76
>pdb|3EOA|I Chain I, Crystal Structure The Fab Fragment Of Efalizumab In
Complex With Lfa-1 I Domain, Form I
pdb|3EOA|J Chain J, Crystal Structure The Fab Fragment Of Efalizumab In
Complex With Lfa-1 I Domain, Form I
pdb|3EOB|I Chain I, Crystal Structure The Fab Fragment Of Efalizumab In
Complex With Lfa-1 I Domain, Form Ii
pdb|3EOB|J Chain J, Crystal Structure The Fab Fragment Of Efalizumab In
Complex With Lfa-1 I Domain, Form Ii
Length = 181
Score = 29.3 bits (64), Expect = 9.5, Method: Compositional matrix adjust.
Identities = 19/60 (31%), Positives = 32/60 (53%), Gaps = 7/60 (11%)
Query: 406 SIEKEEYGKLFDFIREKKLRVKNT-----GKGEKPNYKEDFGSSD--DEKEPDAYLARVK 458
S++ +E+ K+ DF+++ ++ NT +YK +F SD K+PDA L VK
Sbjct: 14 SLQPDEFQKILDFMKDVMKKLSNTSYQFAAVQFSTSYKTEFDFSDYVKRKDPDALLKHVK 73
>pdb|1LFA|A Chain A, Cd11a I-Domain With Bound Mn++
pdb|1LFA|B Chain B, Cd11a I-Domain With Bound Mn++
pdb|1ZOO|A Chain A, Cd11a I-Domain With Bound Magnesium Ion
pdb|1ZOO|B Chain B, Cd11a I-Domain With Bound Magnesium Ion
pdb|1ZOP|A Chain A, Cd11a I-Domain With Bound Magnesium Ion
pdb|1ZOP|B Chain B, Cd11a I-Domain With Bound Magnesium Ion
pdb|1ZON|A Chain A, Cd11a I-Domain Without Bound Cation
Length = 187
Score = 29.3 bits (64), Expect = 9.7, Method: Compositional matrix adjust.
Identities = 19/60 (31%), Positives = 32/60 (53%), Gaps = 7/60 (11%)
Query: 406 SIEKEEYGKLFDFIREKKLRVKNT-----GKGEKPNYKEDFGSSD--DEKEPDAYLARVK 458
S++ +E+ K+ DF+++ ++ NT +YK +F SD K+PDA L VK
Sbjct: 17 SLQPDEFQKILDFMKDVMKKLSNTSYQFAAVQFSTSYKTEFDFSDYVKRKDPDALLKHVK 76
>pdb|1RD4|A Chain A, An Allosteric Inhibitor Of Lfa-1 Bound To Its I-Domain
pdb|1RD4|B Chain B, An Allosteric Inhibitor Of Lfa-1 Bound To Its I-Domain
pdb|1RD4|C Chain C, An Allosteric Inhibitor Of Lfa-1 Bound To Its I-Domain
pdb|1RD4|D Chain D, An Allosteric Inhibitor Of Lfa-1 Bound To Its I-Domain
Length = 191
Score = 28.9 bits (63), Expect = 9.8, Method: Compositional matrix adjust.
Identities = 19/60 (31%), Positives = 32/60 (53%), Gaps = 7/60 (11%)
Query: 406 SIEKEEYGKLFDFIREKKLRVKNT-----GKGEKPNYKEDFGSSD--DEKEPDAYLARVK 458
S++ +E+ K+ DF+++ ++ NT +YK +F SD K+PDA L VK
Sbjct: 21 SLQPDEFQKILDFMKDVMKKLSNTSYQFAAVQFSTSYKTEFDFSDYVKRKDPDALLKHVK 80
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
0.315 0.134 0.390
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 18,348,232
Number of Sequences: 62578
Number of extensions: 729925
Number of successful extensions: 1643
Number of sequences better than 100.0: 65
Number of HSP's better than 100.0 without gapping: 46
Number of HSP's successfully gapped in prelim test: 19
Number of HSP's that attempted gapping in prelim test: 1586
Number of HSP's gapped (non-prelim): 67
length of query: 764
length of database: 14,973,337
effective HSP length: 106
effective length of query: 658
effective length of database: 8,340,069
effective search space: 5487765402
effective search space used: 5487765402
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: 55 (25.8 bits)