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= 038865
(345 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3G65|A Chain A, Crystal Structure Of The Human Rad9-Rad1-Hus1 Dna Damage
Checkpoint Complex
Length = 296
Score = 92.8 bits (229), Expect = 3e-19, Method: Compositional matrix adjust.
Identities = 80/290 (27%), Positives = 134/290 (46%), Gaps = 33/290 (11%)
Query: 1 MEFAVSGNALKTFARCLACLSRIGNELVIQASSHQLAFHTLNSSRSAYQSITFMPNFFDV 60
M+ V+G +K + + LSRIG+EL ++ L+ T+NSSRSAY F P FF
Sbjct: 1 MKCLVTGGNVKVLGKAVHSLSRIGDELYLEPLEDGLSLRTVNSSRSAYACFLFAPLFFQQ 60
Query: 61 Y---TVSGAQVQCSVLLKAVCAVLRTPT---ASIDNLTVQLPNSDAPKVQWTLKCYNGMK 114
Y T ++C +L+K+ +V R+ +++ + L N + ++ L C G++
Sbjct: 61 YQAATPGQDLLRCKILMKSFLSVFRSLAMLEKTVEKCCISL-NGRSSRLVVQLHCKFGVR 119
Query: 115 KAYWITCNVEPDIQHLSLDRRRFPSNFVVRPRDLNRLLSNFQSSLQEITVIATEPTSLPS 174
K + ++ +Q + D P R L + F +L E+T+
Sbjct: 120 KTHNLSFQDCESLQAV-FDPASCPHMLRAPARVLGEAVLPFSPALAEVTL---------- 168
Query: 175 DAASEIG-GKAVELRSYIDPTKDNDS-TLHTQLWIDPTEEFVQYTHSGDPVDVTFGVKEL 232
IG G+ V LRSY + D+ + + T++ + EE Q + + V +TF +KE
Sbjct: 169 ----GIGRGRRVILRSYHEEEADSTAKAMVTEMCLG--EEDFQQLQAQEGVAITFCLKEF 222
Query: 233 KAFLSFCEGCEVDIHLFFDKAGEPILMAPKFGLDDGSGSNFDATLVLATM 282
+ LSF E +++ + FD G P + K L DG VLAT+
Sbjct: 223 RGLLSFAESANLNLSIHFDAPGRPAIFTIKDSLLDGH-------FVLATL 265
>pdb|3GGR|A Chain A, Crystal Structure Of The Human Rad9-Hus1-Rad1 Complex
Length = 270
Score = 92.0 bits (227), Expect = 4e-19, Method: Compositional matrix adjust.
Identities = 80/290 (27%), Positives = 134/290 (46%), Gaps = 33/290 (11%)
Query: 1 MEFAVSGNALKTFARCLACLSRIGNELVIQASSHQLAFHTLNSSRSAYQSITFMPNFFDV 60
M+ V+G +K + + LSRIG+EL ++ L+ T+NSSRSAY F P FF
Sbjct: 1 MKCLVTGGNVKVLGKAVHSLSRIGDELYLEPLEDGLSLRTVNSSRSAYACFLFAPLFFQQ 60
Query: 61 Y---TVSGAQVQCSVLLKAVCAVLRTPT---ASIDNLTVQLPNSDAPKVQWTLKCYNGMK 114
Y T ++C +L+K+ +V R+ +++ + L N + ++ L C G++
Sbjct: 61 YQAATPGQDLLRCKILMKSFLSVFRSLAMLEKTVEKCCISL-NGRSSRLVVQLHCKFGVR 119
Query: 115 KAYWITCNVEPDIQHLSLDRRRFPSNFVVRPRDLNRLLSNFQSSLQEITVIATEPTSLPS 174
K + ++ +Q + D P R L + F +L E+T+
Sbjct: 120 KTHNLSFQDCESLQAV-FDPASCPHMLRAPARVLGEAVLPFSPALAEVTL---------- 168
Query: 175 DAASEIG-GKAVELRSYIDPTKDNDS-TLHTQLWIDPTEEFVQYTHSGDPVDVTFGVKEL 232
IG G+ V LRSY + D+ + + T++ + EE Q + + V +TF +KE
Sbjct: 169 ----GIGRGRRVILRSYHEEEADSTAKAMVTEMCLG--EEDFQQLQAQEGVAITFCLKEF 222
Query: 233 KAFLSFCEGCEVDIHLFFDKAGEPILMAPKFGLDDGSGSNFDATLVLATM 282
+ LSF E +++ + FD G P + K L DG VLAT+
Sbjct: 223 RGLLSFAESANLNLSIHFDAPGRPAIFTIKDSLLDGH-------FVLATL 265
>pdb|3A1J|A Chain A, Crystal Structure Of The Human Rad9-Hus1-Rad1 Complex
Length = 266
Score = 89.0 bits (219), Expect = 3e-18, Method: Compositional matrix adjust.
Identities = 78/285 (27%), Positives = 127/285 (44%), Gaps = 31/285 (10%)
Query: 5 VSGNALKTFARCLACLSRIGNELVIQASSHQLAFHTLNSSRSAYQSITFMPNFFDVY--- 61
V+G +K + + LSRIG+EL ++ L+ T+NSSRSAY F P FF Y
Sbjct: 5 VTGGNVKVLGKAVHSLSRIGDELYLEPLEDGLSLRTVNSSRSAYACFLFAPLFFQQYQAA 64
Query: 62 TVSGAQVQCSVLLKAVCAVLRTPTA---SIDNLTVQLPNSDAPKVQWTLKCYNGMKKAYW 118
T ++C +L K+ +V R+ +++ + L N + ++ L C G++K +
Sbjct: 65 TPGQDLLRCKILXKSFLSVFRSLAXLEKTVEKCCISL-NGRSSRLVVQLHCKFGVRKTHN 123
Query: 119 ITCNVEPDIQHLSLDRRRFPSNFVVRPRDLNRLLSNFQSSLQEITVIATEPTSLPSDAAS 178
++ +Q + D P R L + F +L E+T+
Sbjct: 124 LSFQDCESLQAV-FDPASCPHXLRAPARVLGEAVLPFSPALAEVTL-------------- 168
Query: 179 EIG-GKAVELRSYIDPTKDNDSTLHTQLWIDPTEEFVQYTHSGDPVDVTFGVKELKAFLS 237
IG G+ V LRSY + D+ + E+F Q + + V +TF +KE + LS
Sbjct: 169 GIGRGRRVILRSYHEEEADSTAKAXVTEXCLGEEDF-QQLQAQEGVAITFCLKEFRGLLS 227
Query: 238 FCEGCEVDIHLFFDKAGEPILMAPKFGLDDGSGSNFDATLVLATM 282
F E +++ + FD G P + K L DG VLAT+
Sbjct: 228 FAESANLNLSIHFDAPGRPAIFTIKDSLLDGH-------FVLATL 265
>pdb|2VH9|A Chain A, Crystal Structure Of Nxg1-Deltayniig In Complex With Xllg,
A Xyloglucan Derived Oligosaccharide
pdb|2VH9|B Chain B, Crystal Structure Of Nxg1-Deltayniig In Complex With Xllg,
A Xyloglucan Derived Oligosaccharide
Length = 290
Score = 30.4 bits (67), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 14/53 (26%), Positives = 25/53 (47%)
Query: 180 IGGKAVELRSYIDPTKDNDSTLHTQLWIDPTEEFVQYTHSGDPVDVTFGVKEL 232
I GK L++ + D + LW DPT+++ Y P ++ F V ++
Sbjct: 127 IPGKPYTLQTNVFIEGSGDREMRIHLWFDPTQDYHNYAIYWTPSEIIFFVDDV 179
>pdb|2UWB|A Chain A, Crystal Structure Of The Nasturtium Seedling Mutant
Xyloglucanase Isoform Nxg1-Delta-Yniig
pdb|2UWB|B Chain B, Crystal Structure Of The Nasturtium Seedling Mutant
Xyloglucanase Isoform Nxg1-Delta-Yniig
Length = 267
Score = 30.0 bits (66), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 14/53 (26%), Positives = 25/53 (47%)
Query: 180 IGGKAVELRSYIDPTKDNDSTLHTQLWIDPTEEFVQYTHSGDPVDVTFGVKEL 232
I GK L++ + D + LW DPT+++ Y P ++ F V ++
Sbjct: 104 IPGKPYTLQTNVFIEGSGDREMRIHLWFDPTQDYHNYAIYWTPSEIIFFVDDV 156
>pdb|2LTJ|A Chain A, Conformational Analysis Of Strh, The Surface-Attached Exo-
Beta-D-N- Acetylglucosaminidase From Streptococcus
Pneumoniae
Length = 112
Score = 28.5 bits (62), Expect = 5.2, Method: Composition-based stats.
Identities = 31/103 (30%), Positives = 41/103 (39%), Gaps = 12/103 (11%)
Query: 125 PDIQHLSLDRRRFPSNFVVRPRDLNRLLSNFQSSLQEI--TVIATEPTSLPSDAASEI-G 181
P H+SLD +N RP + R +EI VI E +LP+ + I
Sbjct: 16 PRGSHMSLDENEVAANVETRPELITR--------TEEIPFEVIKKENPNLPAGQENIITA 67
Query: 182 GKAVELRSYIDPTKDNDSTLHTQLWIDPTEEFV-QYTHSGDPV 223
G E YI +N T T L T+E + Q G PV
Sbjct: 68 GVKGERTHYISVLTENGKTTETVLDSQVTKEVINQVVEVGAPV 110
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
0.318 0.131 0.386
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,893,262
Number of Sequences: 62578
Number of extensions: 391261
Number of successful extensions: 874
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: 866
Number of HSP's gapped (non-prelim): 6
length of query: 345
length of database: 14,973,337
effective HSP length: 100
effective length of query: 245
effective length of database: 8,715,537
effective search space: 2135306565
effective search space used: 2135306565
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 52 (24.6 bits)